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This page was generated on 2025-11-13 11:32 -0500 (Thu, 13 Nov 2025).

HostnameOSArch (*)R versionInstalled pkgs
kjohnson3macOS 13.7.7 Venturaarm64R Under development (unstable) (2025-11-04 r88984) -- "Unsuffered Consequences" 4013
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Package 208/2325HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
biodbChebi 1.17.0  (landing page)
Pierrick Roger
Snapshot Date: 2025-11-12 13:40 -0500 (Wed, 12 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)
kjohnson3macOS 13.7.7 Ventura / arm64  OK    OK    OK    OK  YES

CHECK results for biodbChebi on kjohnson3

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

raw results


Summary

Package: biodbChebi
Version: 1.17.0
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:biodbChebi.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings biodbChebi_1.17.0.tar.gz
StartedAt: 2025-11-12 18:06:20 -0500 (Wed, 12 Nov 2025)
EndedAt: 2025-11-12 18:07:11 -0500 (Wed, 12 Nov 2025)
EllapsedTime: 51.5 seconds
RetCode: 0
Status:   OK  
CheckDir: biodbChebi.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:biodbChebi.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings biodbChebi_1.17.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-3.23-bioc/meat/biodbChebi.Rcheck’
* using R Under development (unstable) (2025-11-04 r88984)
* using platform: aarch64-apple-darwin20
* R was compiled by
    Apple clang version 16.0.0 (clang-1600.0.26.6)
    GNU Fortran (GCC) 14.2.0
* running under: macOS Ventura 13.7.8
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘biodbChebi/DESCRIPTION’ ... OK
* this is package ‘biodbChebi’ version ‘1.17.0’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘biodbChebi’ can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking code files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘testthat.R’
 OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE

Status: OK

Installation output

biodbChebi.Rcheck/00install.out

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


* installing to library ‘/Library/Frameworks/R.framework/Versions/4.6-arm64/Resources/library’
* installing *source* package ‘biodbChebi’ ...
** this is package ‘biodbChebi’ version ‘1.17.0’
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (biodbChebi)

Tests output

biodbChebi.Rcheck/tests/testthat.Rout


R Under development (unstable) (2025-11-04 r88984) -- "Unsuffered Consequences"
Copyright (C) 2025 The R Foundation for Statistical Computing
Platform: aarch64-apple-darwin20

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

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

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

> # vi: fdm=marker
> # Script needed to run testthat automatically from ‘R CMD check’. See
> # testthat::test_dir documentation.
> library(testthat)
> library(biodbChebi)
> Sys.setenv(TESTTHAT_REPORTER="summary")
> Sys.setenv(BIODB_LOG_DST="console")
> test_check("biodbChebi")
biodb.INFO [2025-11-12 18:06:57.888][biodb::testContext]
biodb.INFO [2025-11-12 18:06:57.889][biodb::testContext] ********************************************************************************
biodb.INFO [2025-11-12 18:06:57.889][biodb::testContext] Test context - Generic tests
biodb.INFO [2025-11-12 18:06:57.890][biodb::testContext] ********************************************************************************
biodb.INFO [2025-11-12 18:06:57.890][biodb::testContext]
biodb.INFO [2025-11-12 18:06:57.895][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.19.0.
biodb.DEBUG[2025-11-12 18:06:57.896][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.6-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-11-12 18:06:57.899][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-12 18:06:57.899][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-11-12 18:06:57.899][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-11-12 18:06:57.900][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:06:57.900][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:06:57.900][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:06:57.903][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-11-12 18:06:57.936][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-11-12 18:06:57.937][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:06:57.937][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:06:57.937][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:06:57.938][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-11-12 18:06:57.938][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-11-12 18:06:57.938][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:06:57.938][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:06:57.939][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:06:57.939][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-11-12 18:06:57.939][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-11-12 18:06:57.939][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-11-12 18:06:57.940][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:06:57.940][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:06:57.940][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:06:57.940][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-11-12 18:06:57.941][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-11-12 18:06:57.942][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-11-12 18:06:57.942][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:06:57.942][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:06:57.943][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:06:57.943][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-11-12 18:06:57.943][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-11-12 18:06:57.944][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:06:57.949][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:06:57.950][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:06:57.950][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-11-12 18:06:57.950][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-11-12 18:06:57.951][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-11-12 18:06:57.951][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:06:57.951][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:06:57.952][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:06:57.952][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-11-12 18:06:57.952][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-11-12 18:06:57.952][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:06:57.953][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:06:57.953][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:06:57.953][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-11-12 18:06:57.954][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-11-12 18:06:57.954][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-11-12 18:06:57.954][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:06:57.954][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:06:57.955][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:06:57.955][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-11-12 18:06:57.955][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-11-12 18:06:57.955][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-11-12 18:06:57.956][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-11-12 18:06:57.956][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-11-12 18:06:57.956][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-11-12 18:06:57.957][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:06:57.957][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:06:57.957][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:06:57.957][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-11-12 18:06:57.958][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-11-12 18:06:57.958][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:06:57.958][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:06:57.958][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:06:57.959][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-11-12 18:06:57.966][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-11-12 18:06:57.966][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:06:57.967][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:06:57.967][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:06:57.967][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-11-12 18:06:57.968][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-11-12 18:06:57.968][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:06:57.968][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:06:57.969][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:06:57.969][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-11-12 18:06:57.969][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-11-12 18:06:57.970][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-11-12 18:06:57.970][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:06:57.970][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:06:57.970][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:06:57.975][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-11-12 18:06:57.975][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-11-12 18:06:57.994][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-11-12 18:06:57.994][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:06:57.994][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:06:57.995][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:06:57.995][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-11-12 18:06:57.995][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-11-12 18:06:57.996][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-11-12 18:06:57.996][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:06:57.998][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:06:57.998][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:06:58.002][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-11-12 18:06:58.030][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-12 18:06:58.036][self$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[2025-11-12 18:06:58.037][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-12 18:06:58.037][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-12 18:06:58.038][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-12 18:06:58.038][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-12 18:06:58.038][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-12 18:06:58.039][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-12 18:06:58.039][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-11-12 18:06:58.039][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-12 18:06:58.040][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-12 18:06:58.040][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-11-12 18:06:58.047][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-12 18:06:58.047][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-12 18:06:58.047][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-12 18:06:58.048][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-12 18:06:58.048][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-12 18:06:58.048][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-12 18:06:58.048][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-11-12 18:06:58.048][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-11-12 18:06:58.048][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-12 18:06:58.048][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-12 18:06:58.049][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-12 18:06:58.049][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-12 18:06:58.053][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-12 18:06:58.053][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-12 18:06:58.053][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-12 18:06:58.054][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-12 18:06:58.054][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-12 18:06:58.054][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-12 18:06:58.055][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-12 18:06:58.055][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-12 18:06:58.055][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-11-12 18:06:58.056][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-12 18:06:58.056][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-11-12 18:06:58.056][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-12 18:06:58.057][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-12 18:06:58.057][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-12 18:06:58.057][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-12 18:06:58.058][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-12 18:06:58.058][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-12 18:06:58.058][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-11-12 18:06:58.058][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-12 18:06:58.059][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-12 18:06:58.059][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-11-12 18:06:58.059][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-12 18:06:58.060][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-12 18:06:58.060][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-12 18:06:58.060][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-12 18:06:58.060][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-12 18:06:58.060][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-12 18:06:58.060][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-11-12 18:06:58.060][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-11-12 18:06:58.061][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-12 18:06:58.061][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-12 18:06:58.061][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-12 18:06:58.061][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-12 18:06:58.062][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-12 18:06:58.062][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-12 18:06:58.062][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-12 18:06:58.063][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-12 18:06:58.064][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-12 18:06:58.064][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-12 18:06:58.068][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-12 18:06:58.068][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-12 18:06:58.068][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-11-12 18:06:58.069][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-11-12 18:06:58.069][self$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[2025-11-12 18:06:58.070][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-12 18:06:58.070][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-12 18:06:58.070][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-12 18:06:58.071][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-12 18:06:58.071][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-12 18:06:58.071][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-12 18:06:58.072][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-11-12 18:06:58.072][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-12 18:06:58.072][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-11-12 18:06:58.072][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-11-12 18:06:58.073][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-12 18:06:58.073][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-12 18:06:58.076][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-12 18:06:58.077][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-11-12 18:06:58.077][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-12 18:06:58.077][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-12 18:06:58.077][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-12 18:06:58.078][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-12 18:06:58.078][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-12 18:06:58.078][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-12 18:06:58.078][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-12 18:06:58.079][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-12 18:06:58.079][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-12 18:06:58.079][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-12 18:06:58.079][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-12 18:06:58.080][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-12 18:06:58.080][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-11-12 18:06:58.081][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-11-12 18:06:58.081][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-11-12 18:06:58.081][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-12 18:06:58.082][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-12 18:06:58.082][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-12 18:06:58.082][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-12 18:06:58.082][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-12 18:06:58.083][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-12 18:06:58.083][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-11-12 18:06:58.083][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-12 18:06:58.083][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-11-12 18:06:58.084][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-11-12 18:06:58.084][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-12 18:06:58.084][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-12 18:06:58.085][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-12 18:06:58.085][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-11-12 18:06:58.085][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-12 18:06:58.085][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-12 18:06:58.086][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-12 18:06:58.086][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-12 18:06:58.087][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-12 18:06:58.087][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-12 18:06:58.088][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-12 18:06:58.088][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-12 18:06:58.088][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-12 18:06:58.096][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-12 18:06:58.096][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-12 18:06:58.096][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-12 18:06:58.098][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-12 18:06:58.098][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:06:58.099][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[2025-11-12 18:06:58.099][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:06:58.099][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:06:58.099][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:06:58.100][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:06:58.100][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[2025-11-12 18:06:58.100][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:06:58.100][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:06:58.101][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:06:58.101][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:06:58.101][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:06:58.101][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:06:58.102][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:06:58.102][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:06:58.102][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:06:58.102][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:06:58.103][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:06:58.103][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:06:58.103][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:06:58.103][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:06:58.104][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:06:58.104][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:06:58.105][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:06:58.105][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:06:58.105][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:06:58.105][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:06:58.106][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:06:58.106][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:06:58.106][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:06:58.106][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:06:58.107][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[2025-11-12 18:06:58.107][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:06:58.107][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:06:58.107][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:06:58.108][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:06:58.108][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:06:58.108][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:06:58.108][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:06:58.109][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:06:58.109][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:06:58.109][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:06:58.109][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:06:58.109][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:06:58.110][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:06:58.110][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:06:58.110][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:06:58.110][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:06:58.111][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:06:58.111][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:06:58.111][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:06:58.111][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:06:58.112][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:06:58.112][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:06:58.112][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:06:58.112][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:06:58.113][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[2025-11-12 18:06:58.113][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:06:58.113][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:06:58.113][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:06:58.114][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:06:58.114][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[2025-11-12 18:06:58.114][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:06:58.114][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:06:58.115][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:06:58.115][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:06:58.115][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:06:58.115][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:06:58.116][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:06:58.116][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:06:58.116][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:06:58.116][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:06:58.116][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:06:58.117][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:06:58.117][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:06:58.117][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:06:58.117][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:06:58.118][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:06:58.118][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:06:58.118][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:06:58.118][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:06:58.119][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[2025-11-12 18:06:58.119][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-11-12 18:06:58.121][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-11-12 18:06:58.121][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-11-12 18:06:58.122][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-11-12 18:06:58.122][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-11-12 18:06:58.123][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-11-12 18:06:58.123][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-11-12 18:06:58.123][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-11-12 18:06:58.124][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-11-12 18:06:58.124][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-11-12 18:06:58.128][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-11-12 18:06:58.128][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-11-12 18:06:58.129][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-11-12 18:06:58.129][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-11-12 18:06:58.129][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-11-12 18:06:58.130][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-11-12 18:06:58.130][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-11-12 18:06:58.131][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-11-12 18:06:58.131][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-11-12 18:06:58.134][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-11-12 18:06:58.135][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-11-12 18:06:58.135][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-11-12 18:06:58.135][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-11-12 18:06:58.136][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-11-12 18:06:58.136][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-11-12 18:06:58.137][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-11-12 18:06:58.137][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-11-12 18:06:58.142][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-11-12 18:06:58.146][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-11-12 18:06:58.146][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-11-12 18:06:58.147][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-11-12 18:06:58.147][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-11-12 18:06:58.148][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-11-12 18:06:58.148][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-11-12 18:06:58.149][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-11-12 18:06:58.149][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-11-12 18:06:58.150][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-11-12 18:06:58.150][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-11-12 18:06:58.151][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-11-12 18:06:58.151][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-11-12 18:06:58.152][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-11-12 18:06:58.152][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-11-12 18:06:58.153][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-11-12 18:06:58.153][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-11-12 18:06:58.153][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-11-12 18:06:58.154][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-11-12 18:06:58.154][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-11-12 18:06:58.167][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-11-12 18:06:58.167][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-11-12 18:06:58.168][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-11-12 18:06:58.168][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-11-12 18:06:58.169][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-11-12 18:06:58.169][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-11-12 18:06:58.170][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-11-12 18:06:58.170][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-11-12 18:06:58.170][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-11-12 18:06:58.171][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-11-12 18:06:58.171][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-11-12 18:06:58.172][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-11-12 18:06:58.172][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-11-12 18:06:58.173][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-11-12 18:06:58.173][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-11-12 18:06:58.174][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-11-12 18:06:58.174][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-11-12 18:06:58.174][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-11-12 18:06:58.175][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-11-12 18:06:58.175][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-11-12 18:06:58.175][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-11-12 18:06:58.176][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-11-12 18:06:58.178][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-11-12 18:06:58.183][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-11-12 18:06:58.183][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-11-12 18:06:58.184][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-11-12 18:06:58.184][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-11-12 18:06:58.185][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-11-12 18:06:58.185][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-11-12 18:06:58.185][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-11-12 18:06:58.186][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-11-12 18:06:58.186][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-11-12 18:06:58.187][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-11-12 18:06:58.187][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-11-12 18:06:58.187][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-11-12 18:06:58.188][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-11-12 18:06:58.190][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-11-12 18:06:58.190][initialize] This is biodb version 1.19.0.
biodb.DEBUG[2025-11-12 18:06:58.191][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-12 18:06:58.192][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:06:58.197][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:06:58.198][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:06:58.198][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:06:58.199][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:06:58.200][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:06:58.200][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:06:58.200][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:06:58.200][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:06:58.201][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:06:58.201][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:06:58.201][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:06:58.201][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:06:58.202][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:06:58.204][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:06:58.205][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:06:58.205][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:06:58.206][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:06:58.207][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:06:58.208][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:06:58.208][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:06:58.209][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:06:58.209][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:06:58.209][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:06:58.209][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[2025-11-12 18:06:58.210][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:06:58.210][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:06:58.210][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:06:58.210][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:06:58.211][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:06:58.211][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:06:58.211][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[2025-11-12 18:06:58.211][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:06:58.212][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:06:58.212][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:06:58.212][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:06:58.212][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:06:58.213][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:06:58.213][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:06:58.213][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:06:58.213][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:06:58.214][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:06:58.214][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:06:58.214][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:06:58.214][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:06:58.215][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:06:58.215][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:06:58.215][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:06:58.215][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:06:58.215][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:06:58.216][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:06:58.216][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:06:58.216][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:06:58.216][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:06:58.217][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:06:58.217][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:06:58.217][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:06:58.217][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:06:58.218][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:06:58.218][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:06:58.218][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:06:58.220][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:06:58.223][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:06:58.223][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:06:58.223][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:06:58.224][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:06:58.224][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:06:58.231][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:06:58.231][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:06:58.232][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:06:58.232][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:06:58.232][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:06:58.232][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:06:58.233][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:06:58.233][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:06:58.233][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:06:58.233][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:06:58.234][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:06:58.234][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:06:58.234][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:06:58.234][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:06:58.235][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:06:58.235][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:06:58.235][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:06:58.235][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:06:58.236][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:06:58.236][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:06:58.241][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:06:58.241][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:06:58.241][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:06:58.242][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:06:58.242][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:06:58.242][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:06:58.242][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:06:58.243][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:06:58.243][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:06:58.250][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:06:58.250][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:06:58.251][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:06:58.251][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:06:58.251][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:06:58.252][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[2025-11-12 18:06:58.252][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:06:58.252][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:06:58.252][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:06:58.253][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:06:58.253][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:06:58.253][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:06:58.254][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:06:58.254][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:06:58.254][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:06:58.255][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:06:58.255][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:06:58.255][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:06:58.255][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:06:58.256][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:06:58.257][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.6-arm64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-11-12 18:06:58.269][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-11-12 18:06:58.270][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-12 18:06:58.270][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-11-12 18:06:58.271][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-12 18:06:58.271][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-12 18:06:58.271][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-12 18:06:58.272][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-12 18:06:58.272][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-11-12 18:06:58.272][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-11-12 18:06:58.273][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-11-12 18:06:58.273][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-12 18:06:58.273][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-12 18:06:58.274][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-11-12 18:06:58.274][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-12 18:06:58.274][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-11-12 18:06:58.274][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-11-12 18:06:58.274][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-11-12 18:06:58.274][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-11-12 18:06:58.274][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-11-12 18:06:58.274][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-11-12 18:06:58.274][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-11-12 18:06:58.274][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-11-12 18:06:58.274][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-11-12 18:06:58.274][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-11-12 18:06:58.274][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-11-12 18:06:58.275][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-11-12 18:06:58.275][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-12 18:06:58.275][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-12 18:06:58.275][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-12 18:06:58.275][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-11-12 18:06:58.275][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-12 18:06:58.276][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-12 18:06:58.285][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-12 18:06:58.286][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-12 18:06:58.287][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-12 18:06:58.288][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-12 18:06:58.288][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-11-12 18:06:58.288][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-11-12 18:06:58.288][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-12 18:06:58.289][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-12 18:06:58.289][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-11-12 18:06:58.289][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-11-12 18:06:58.289][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-11-12 18:06:58.291][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-11-12 18:06:58.292][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-11-12 18:06:58.292][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-11-12 18:06:58.293][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-11-12 18:06:58.293][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-11-12 18:06:58.293][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-11-12 18:06:58.307][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-11-12 18:06:58.321][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-11-12 18:06:58.325][biodb::testThat]
biodb.INFO [2025-11-12 18:06:58.326][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2025-11-12 18:06:58.326][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-12 18:06:58.326][biodb::testThat]
biodb.TRACE[2025-11-12 18:06:58.329][loadFileContents] Loaded 1 files from cache: [1]: "/Library/Frameworks/R.framework/Versions/4.6-arm64/Resources/library/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2025-11-12 18:06:58.330][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-12 18:06:58.331][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-12 18:06:58.334][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:06:58.335][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:06:58.335][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:06:58.346][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:06:58.346][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:06:58.347][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:06:58.347][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:06:58.352][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:06:58.352][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:06:58.352][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.353][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.354][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:06:58.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:06:58.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.399][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-12 18:06:58.399][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-12 18:06:58.399][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.400][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.420][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-12 18:06:58.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-12 18:06:58.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.421][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-12 18:06:58.421][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-12 18:06:58.422][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.422][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.422][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-12 18:06:58.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-12 18:06:58.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.423][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-12 18:06:58.424][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-12 18:06:58.435][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.435][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.436][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-12 18:06:58.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-12 18:06:58.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.437][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-12 18:06:58.437][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-12 18:06:58.438][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.442][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.442][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-12 18:06:58.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-12 18:06:58.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.444][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-12 18:06:58.444][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-12 18:06:58.445][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.445][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.445][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-12 18:06:58.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-12 18:06:58.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.447][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-12 18:06:58.447][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:06:58.449][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.450][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.450][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-12 18:06:58.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:06:58.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.474][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:06:58.475][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:06:58.476][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.477][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.478][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:06:58.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:06:58.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.485][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-12 18:06:58.485][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-12 18:06:58.485][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.489][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.489][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-12 18:06:58.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-12 18:06:58.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.491][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-12 18:06:58.491][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-12 18:06:58.491][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.494][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.495][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-12 18:06:58.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-12 18:06:58.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.496][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-12 18:06:58.499][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-12 18:06:58.499][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.500][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.501][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-12 18:06:58.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-12 18:06:58.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.503][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:06:58.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:06:58.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.504][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:06:58.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:06:58.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.506][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:06:58.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:06:58.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.507][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:06:58.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:06:58.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.508][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:06:58.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:06:58.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.510][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:06:58.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:06:58.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.511][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:06:58.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:06:58.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.536][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:06:58.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:06:58.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.538][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:06:58.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:06:58.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.539][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:06:58.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:06:58.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:06:58.540][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2025-11-12 18:06:58.545][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-12 18:06:58.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-12 18:06:58.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.546][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-12 18:06:58.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-12 18:06:58.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.599][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-12 18:06:58.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-12 18:06:58.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.601][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-12 18:06:58.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-12 18:06:58.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.602][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:06:58.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:06:58.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.603][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:06:58.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:06:58.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.604][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-11-12 18:06:58.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-11-12 18:06:58.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.605][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-11-12 18:06:58.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-11-12 18:06:58.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.606][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-11-12 18:06:58.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-11-12 18:06:58.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.607][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-11-12 18:06:58.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-11-12 18:06:58.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.622][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:06:58.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:06:58.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.629][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:06:58.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:06:58.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.638][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:06:58.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:06:58.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.639][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:06:58.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:06:58.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.640][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:06:58.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:06:58.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.642][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:06:58.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:06:58.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.643][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:06:58.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:06:58.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.644][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:06:58.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:06:58.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.646][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:06:58.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:06:58.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.653][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:06:58.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:06:58.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.654][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:06:58.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:06:58.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.659][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:06:58.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:06:58.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.660][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:06:58.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:06:58.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.661][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:06:58.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:06:58.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.663][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:06:58.663][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:06:58.663][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.663][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.664][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:06:58.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:06:58.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.672][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:06:58.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:06:58.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.673][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:06:58.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:06:58.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.675][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:06:58.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:06:58.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.676][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:06:58.676][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:06:58.676][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.677][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.677][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:06:58.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:06:58.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.706][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-12 18:06:58.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-12 18:06:58.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.711][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-12 18:06:58.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-12 18:06:58.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.724][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-12 18:06:58.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-12 18:06:58.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.725][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-12 18:06:58.725][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-12 18:06:58.726][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.726][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.726][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-12 18:06:58.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-12 18:06:58.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.730][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-12 18:06:58.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-12 18:06:58.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.732][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-12 18:06:58.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-12 18:06:58.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.734][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-12 18:06:58.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-12 18:06:58.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.735][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-12 18:06:58.735][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-12 18:06:58.735][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.736][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.736][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-12 18:06:58.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-12 18:06:58.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.740][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:06:58.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:06:58.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.741][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:06:58.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:06:58.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.751][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:06:58.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:06:58.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.755][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:06:58.756][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:06:58.757][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.758][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.759][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:06:58.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:06:58.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.783][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:06:58.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:06:58.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.786][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:06:58.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:06:58.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.787][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:06:58.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:06:58.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.788][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:06:58.789][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:06:58.789][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.792][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.792][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:06:58.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:06:58.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.811][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-12 18:06:58.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-12 18:06:58.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.813][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-12 18:06:58.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-12 18:06:58.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.814][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-12 18:06:58.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-12 18:06:58.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.815][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-12 18:06:58.816][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-12 18:06:58.816][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.816][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.817][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-12 18:06:58.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-12 18:06:58.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.824][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-11-12 18:06:58.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-12 18:06:58.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.830][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-11-12 18:06:58.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-12 18:06:58.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.831][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-11-12 18:06:58.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-12 18:06:58.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.833][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-11-12 18:06:58.833][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-12 18:06:58.833][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.833][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.834][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-11-12 18:06:58.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-12 18:06:58.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.841][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-12 18:06:58.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-12 18:06:58.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.850][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-12 18:06:58.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-12 18:06:58.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.852][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-12 18:06:58.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-12 18:06:58.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.859][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-12 18:06:58.860][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-12 18:06:58.860][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.860][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.861][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-12 18:06:58.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-12 18:06:58.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.871][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-12 18:06:58.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-12 18:06:58.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.872][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-12 18:06:58.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-12 18:06:58.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.874][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-12 18:06:58.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-12 18:06:58.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.875][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-12 18:06:58.876][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-12 18:06:58.876][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.876][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.876][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-12 18:06:58.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-12 18:06:58.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.880][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-12 18:06:58.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-12 18:06:58.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.882][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-12 18:06:58.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-12 18:06:58.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.894][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-12 18:06:58.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-12 18:06:58.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.895][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-12 18:06:58.895][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-12 18:06:58.896][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.896][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.896][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-12 18:06:58.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-12 18:06:58.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.900][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-12 18:06:58.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-12 18:06:58.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.929][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-12 18:06:58.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-12 18:06:58.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.932][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-12 18:06:58.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-12 18:06:58.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.934][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-12 18:06:58.934][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-12 18:06:58.934][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.934][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.935][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-12 18:06:58.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-12 18:06:58.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.960][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:06:58.961][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:06:58.962][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.963][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.982][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-12 18:06:58.983][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-12 18:06:58.983][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.983][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.985][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-12 18:06:58.985][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-12 18:06:58.985][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.986][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.987][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-12 18:06:58.988][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-12 18:06:58.988][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.988][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:58.990][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-12 18:06:58.990][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-12 18:06:58.994][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:58.995][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:59.000][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-12 18:06:59.000][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-12 18:06:59.001][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:59.001][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:59.002][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:06:59.003][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:06:59.003][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:59.003][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:59.023][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:06:59.024][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:06:59.024][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:59.025][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:59.027][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-11-12 18:06:59.027][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-12 18:06:59.028][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:59.028][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:59.031][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-12 18:06:59.032][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-12 18:06:59.032][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:59.033][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:59.035][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-12 18:06:59.035][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-12 18:06:59.035][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:59.036][ef$get] fields variable is a list.
biodb.INFO [2025-11-12 18:06:59.041][biodb::testThat]
biodb.INFO [2025-11-12 18:06:59.043][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2025-11-12 18:06:59.043][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-12 18:06:59.043][biodb::testThat]
biodb.DEBUG[2025-11-12 18:06:59.049][private$loadEntries] Creating entries from ids [1]: "15440".
biodb.DEBUG[2025-11-12 18:06:59.052][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-12 18:06:59.054][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-12 18:06:59.086][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15440.xml.
biodb.DEBUG[2025-11-12 18:06:59.087][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-12 18:06:59.095][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-12 18:06:59.095][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-12 18:06:59.096][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:06:59.096][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:06:59.096][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:06:59.098][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:06:59.098][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:06:59.098][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:06:59.099][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:06:59.099][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:06:59.100][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:06:59.100][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:59.100][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:59.101][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:06:59.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:06:59.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:59.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:59.121][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-12 18:06:59.122][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-12 18:06:59.122][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:59.122][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:59.123][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-12 18:06:59.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-12 18:06:59.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:59.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:59.124][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-12 18:06:59.124][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-12 18:06:59.125][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:59.125][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:59.125][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-12 18:06:59.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-12 18:06:59.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:59.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:59.127][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-12 18:06:59.127][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-12 18:06:59.127][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:59.127][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:59.128][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-12 18:06:59.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-12 18:06:59.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:59.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:59.129][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-12 18:06:59.129][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-12 18:06:59.129][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:59.130][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:59.130][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-12 18:06:59.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-12 18:06:59.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:59.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:59.133][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-12 18:06:59.134][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-12 18:06:59.135][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:59.136][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:59.137][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-12 18:06:59.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-12 18:06:59.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:59.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:59.140][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-12 18:06:59.145][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:06:59.146][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:59.146][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:59.146][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-12 18:06:59.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:06:59.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:59.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:59.148][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:06:59.148][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:06:59.148][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:59.148][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:59.149][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:06:59.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:06:59.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:59.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:59.150][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-12 18:06:59.150][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-12 18:06:59.150][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:59.151][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:59.151][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-12 18:06:59.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-12 18:06:59.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:59.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:59.152][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-12 18:06:59.153][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-12 18:06:59.153][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:59.153][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:59.154][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-12 18:06:59.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-12 18:06:59.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:59.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:59.155][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-12 18:06:59.155][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-12 18:06:59.156][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:59.156][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:59.157][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-12 18:06:59.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-12 18:06:59.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:59.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:59.158][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:06:59.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:06:59.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:59.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:59.160][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:06:59.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:06:59.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:59.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:59.164][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:06:59.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:06:59.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:59.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:59.188][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:06:59.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:06:59.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:59.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:59.190][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:06:59.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:06:59.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:59.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:59.192][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:06:59.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:06:59.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:59.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:59.220][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:06:59.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:06:59.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:59.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:59.223][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:06:59.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:06:59.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:59.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:59.224][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:06:59.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:06:59.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:59.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:59.225][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:06:59.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:06:59.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:59.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:06:59.226][self$createEntryFromContent] Accession numbers: 15440.
biodb.TRACE[2025-11-12 18:06:59.226][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2025-11-12 18:06:59.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2025-11-12 18:06:59.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:59.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:59.231][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2025-11-12 18:06:59.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2025-11-12 18:06:59.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:59.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:59.236][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2025-11-12 18:06:59.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2025-11-12 18:06:59.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:59.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-11-12 18:06:59.240][biodb::testThat]
biodb.INFO [2025-11-12 18:06:59.241][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2025-11-12 18:06:59.241][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-12 18:06:59.241][biodb::testThat]
biodb.TRACE[2025-11-12 18:06:59.242][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-12 18:06:59.242][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-12 18:06:59.243][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:59.243][ef$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:06:59.243][function(conn, opt)] Testing searchForEntries() with entry "15440" and field "name".
biodb.TRACE[2025-11-12 18:06:59.278][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-12 18:06:59.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-12 18:06:59.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:59.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:59.281][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-12 18:06:59.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-12 18:06:59.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:59.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:59.295][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-12 18:06:59.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-12 18:06:59.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:59.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:06:59.301][function(conn, opt)] With value "squalene".
sched.DEBUG[2025-11-12 18:06:59.326][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-11-12 18:06:59.334][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-12 18:06:59.335][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-11-12 18:06:59.336][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-11-12 18:06:59.346][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-12 18:06:59.369][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-12 18:06:59.371][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-11-12 18:06:59.372][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-12 18:06:59.373][function(conn, opt)] With found IDs [1]: "15440".
biodb.TRACE[2025-11-12 18:06:59.378][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:06:59.378][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:06:59.379][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:59.379][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:59.379][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:06:59.380][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:06:59.380][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:59.380][ef$get] fields variable is a list.
biodb.INFO [2025-11-12 18:06:59.398][biodb::testThat]
biodb.INFO [2025-11-12 18:06:59.399][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2025-11-12 18:06:59.400][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-12 18:06:59.401][biodb::testThat]
biodb.TRACE[2025-11-12 18:06:59.419][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-12 18:06:59.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-12 18:06:59.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:59.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:59.420][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-12 18:06:59.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-12 18:06:59.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:59.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:59.421][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-12 18:06:59.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-12 18:06:59.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:59.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-11-12 18:06:59.465][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 [2025-11-12 18:06:59.466][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-12 18:06:59.467][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-11-12 18:06:59.467][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.INFO [2025-11-12 18:06:59.477][biodb::testThat]
biodb.INFO [2025-11-12 18:06:59.477][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2025-11-12 18:06:59.478][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-12 18:06:59.478][biodb::testThat]
biodb.TRACE[2025-11-12 18:06:59.497][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-12 18:06:59.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-12 18:06:59.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:59.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:59.499][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-12 18:06:59.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-12 18:06:59.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:59.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:59.501][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-12 18:06:59.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-12 18:06:59.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:59.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:59.503][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-12 18:06:59.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-12 18:06:59.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:59.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:59.510][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:06:59.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:06:59.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:59.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:59.515][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:06:59.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:06:59.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:59.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:59.516][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-11-12 18:06:59.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-11-12 18:06:59.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:59.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:59.517][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-11-12 18:06:59.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-11-12 18:06:59.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:59.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:59.518][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-11-12 18:06:59.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-11-12 18:06:59.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:59.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:59.519][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-11-12 18:06:59.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-11-12 18:06:59.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:59.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:59.528][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-12 18:06:59.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-12 18:06:59.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:59.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:59.529][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-12 18:06:59.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-12 18:06:59.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:59.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:59.530][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-12 18:06:59.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-12 18:06:59.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:59.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:59.531][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-12 18:06:59.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-12 18:06:59.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:59.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:59.532][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:06:59.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:06:59.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:59.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:59.533][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:06:59.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:06:59.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:59.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:59.537][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-11-12 18:06:59.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-11-12 18:06:59.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:59.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:59.552][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-11-12 18:06:59.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-11-12 18:06:59.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:59.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:59.555][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-11-12 18:06:59.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-11-12 18:06:59.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:59.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:06:59.556][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-11-12 18:06:59.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-11-12 18:06:59.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:06:59.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-11-12 18:06:59.561][biodb::testThat]
biodb.INFO [2025-11-12 18:06:59.561][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2025-11-12 18:06:59.561][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-12 18:06:59.562][biodb::testThat]
biodb.INFO [2025-11-12 18:06:59.569][biodb::testThat]
biodb.INFO [2025-11-12 18:06:59.569][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2025-11-12 18:06:59.569][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-12 18:06:59.570][biodb::testThat]
biodb.INFO [2025-11-12 18:06:59.572][biodb::testThat]
biodb.INFO [2025-11-12 18:06:59.573][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2025-11-12 18:06:59.573][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-12 18:06:59.573][biodb::testThat]
biodb.DEBUG[2025-11-12 18:06:59.580][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
sched.TRACE[2025-11-12 18:07:00.376][try_get_rcurl_content] Using RCurl package for sending request (https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440).
biodb.INFO [2025-11-12 18:07:00.979][biodb::testThat]
biodb.INFO [2025-11-12 18:07:00.980][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2025-11-12 18:07:00.980][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-12 18:07:00.981][biodb::testThat]
biodb.TRACE[2025-11-12 18:07:00.985][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-12 18:07:00.986][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-12 18:07:00.987][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:00.987][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:00.988][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:00.989][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:00.989][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:00.990][ef$get] fields variable is a list.
biodb.INFO [2025-11-12 18:07:00.991][biodb::testThat]
biodb.INFO [2025-11-12 18:07:00.992][biodb::testThat] Running test function  test.searchCompound  (" We can search for a compound ").
biodb.INFO [2025-11-12 18:07:00.993][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-12 18:07:00.993][biodb::testThat]
biodb.TRACE[2025-11-12 18:07:00.998][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-12 18:07:00.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-12 18:07:00.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:00.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:00.999][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-12 18:07:00.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-12 18:07:00.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.000][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-12 18:07:01.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-12 18:07:01.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-11-12 18:07:01.046][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 [2025-11-12 18:07:01.047][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-12 18:07:01.048][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-11-12 18:07:01.048][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-11-12 18:07:01.079][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 [2025-11-12 18:07:01.080][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-12 18:07:01.082][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-11-12 18:07:01.082][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.TRACE[2025-11-12 18:07:01.088][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-11-12 18:07:01.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-11-12 18:07:01.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.091][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:01.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:01.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.092][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:01.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:01.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.093][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:01.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:01.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.095][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:01.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:01.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.096][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:01.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:01.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-11-12 18:07:01.101][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 [2025-11-12 18:07:01.102][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-12 18:07:01.103][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-11-12 18:07:01.103][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-12 18:07:01.104][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:01.104][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:01.105][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:01.106][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:01.107][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:01.107][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:01.107][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[2025-11-12 18:07:01.108][private$loadEntries] Creating entries from ids [1]: "192288".
biodb.DEBUG[2025-11-12 18:07:01.133][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-12 18:07:01.134][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-12 18:07:01.135][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/192288.xml.
biodb.DEBUG[2025-11-12 18:07:01.136][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-12 18:07:01.136][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-12 18:07:01.136][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-12 18:07:01.137][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:01.137][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:01.138][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:01.140][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:01.140][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:01.140][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:01.140][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:01.141][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:01.142][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:01.142][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.142][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.142][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:01.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:01.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.144][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-12 18:07:01.144][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-12 18:07:01.144][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.144][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.145][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-12 18:07:01.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-12 18:07:01.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.146][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-12 18:07:01.146][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-12 18:07:01.146][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.147][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.147][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-12 18:07:01.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-12 18:07:01.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.148][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-12 18:07:01.149][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-12 18:07:01.149][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.149][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.149][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-12 18:07:01.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-12 18:07:01.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.151][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-12 18:07:01.151][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-12 18:07:01.151][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.151][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.152][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-12 18:07:01.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-12 18:07:01.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.153][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-12 18:07:01.153][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-12 18:07:01.153][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.154][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.154][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-12 18:07:01.154][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:01.156][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.156][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.157][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-12 18:07:01.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:01.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.160][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:01.161][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:01.161][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.161][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.162][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:01.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:01.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.163][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-12 18:07:01.163][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-12 18:07:01.164][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.164][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.164][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-12 18:07:01.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-12 18:07:01.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.166][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-12 18:07:01.168][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-12 18:07:01.169][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.169][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.169][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-12 18:07:01.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-12 18:07:01.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.170][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-12 18:07:01.171][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-12 18:07:01.171][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.171][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.172][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-12 18:07:01.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-12 18:07:01.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.173][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:01.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:01.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.174][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:01.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:01.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.175][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:01.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:01.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.176][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:01.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:01.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.178][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:01.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:01.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.179][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:01.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:01.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.180][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:01.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:01.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.182][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:01.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:01.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.183][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:01.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:01.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.184][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:01.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:01.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:01.186][self$createEntryFromContent] Accession numbers: 192288.
biodb.TRACE[2025-11-12 18:07:01.199][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:01.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:01.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.200][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:01.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:01.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.207][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:01.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:01.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-11-12 18:07:01.211][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-12 18:07:01.220][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-12 18:07:01.222][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-11-12 18:07:01.222][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-12 18:07:01.231][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:01.231][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:01.241][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:01.243][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:01.244][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:01.244][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:01.244][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:01.245][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:01.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:01.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.246][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:01.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:01.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.247][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:01.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:01.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:01.248][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:01.248][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:01.248][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:01.250][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:01.251][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:01.251][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:01.260][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:01.261][private$loadEntries] Creating entries from ids [1]: "209892".
biodb.DEBUG[2025-11-12 18:07:01.261][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-12 18:07:01.262][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-12 18:07:01.263][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/209892.xml.
biodb.DEBUG[2025-11-12 18:07:01.263][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-12 18:07:01.264][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-12 18:07:01.264][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-12 18:07:01.265][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:01.265][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:01.265][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:01.267][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:01.267][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:01.268][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:01.268][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:01.269][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:01.269][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:01.269][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.270][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.270][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:01.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:01.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.271][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-12 18:07:01.271][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-12 18:07:01.272][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.272][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.279][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-12 18:07:01.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-12 18:07:01.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.280][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-12 18:07:01.281][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-12 18:07:01.281][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.281][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.282][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-12 18:07:01.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-12 18:07:01.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.283][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-12 18:07:01.284][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-12 18:07:01.284][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.284][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.285][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-12 18:07:01.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-12 18:07:01.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.286][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-12 18:07:01.286][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-12 18:07:01.286][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.287][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.287][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-12 18:07:01.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-12 18:07:01.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.301][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-12 18:07:01.306][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-12 18:07:01.309][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.315][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.315][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-12 18:07:01.316][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:01.317][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.317][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.317][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-12 18:07:01.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:01.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.319][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:01.319][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:01.319][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.319][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.320][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:01.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:01.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.321][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-12 18:07:01.321][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-12 18:07:01.321][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.322][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.322][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-12 18:07:01.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-12 18:07:01.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.323][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-12 18:07:01.323][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-12 18:07:01.324][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.327][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.328][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-12 18:07:01.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-12 18:07:01.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.331][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-12 18:07:01.332][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-12 18:07:01.332][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.332][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.332][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-12 18:07:01.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-12 18:07:01.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.334][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:01.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:01.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.337][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:01.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:01.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.341][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:01.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:01.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.348][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:01.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:01.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.351][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:01.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:01.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.353][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:01.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:01.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.355][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:01.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:01.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.356][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:01.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:01.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.357][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:01.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:01.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.378][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:01.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:01.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:01.382][self$createEntryFromContent] Accession numbers: 209892.
biodb.TRACE[2025-11-12 18:07:01.383][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:01.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:01.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.397][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:01.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:01.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.399][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:01.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:01.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-11-12 18:07:01.417][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 [2025-11-12 18:07:01.418][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-12 18:07:01.419][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-11-12 18:07:01.420][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-12 18:07:01.431][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:01.431][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:01.432][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:01.434][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:01.434][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:01.434][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:01.435][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:01.435][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:01.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:01.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.436][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:01.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:01.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.437][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:01.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:01.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:01.439][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:01.439][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:01.439][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:01.451][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:01.451][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:01.451][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:01.452][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:01.452][private$loadEntries] Creating entries from ids [1]: "26747".
biodb.DEBUG[2025-11-12 18:07:01.452][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-12 18:07:01.453][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-12 18:07:01.454][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26747.xml.
biodb.DEBUG[2025-11-12 18:07:01.455][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-12 18:07:01.455][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-12 18:07:01.456][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-12 18:07:01.456][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:01.457][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:01.457][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:01.459][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:01.459][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:01.460][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:01.460][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:01.461][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:01.461][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:01.461][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.462][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.462][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:01.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:01.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.463][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-12 18:07:01.467][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-12 18:07:01.475][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.475][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.475][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-12 18:07:01.476][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-12 18:07:01.476][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.476][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.479][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-12 18:07:01.479][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-12 18:07:01.479][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.480][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.480][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-12 18:07:01.481][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-12 18:07:01.485][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.485][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.486][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-12 18:07:01.486][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-12 18:07:01.486][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.487][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.487][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-12 18:07:01.487][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:01.488][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.488][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.488][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:01.489][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:01.489][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.498][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.500][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-12 18:07:01.505][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-12 18:07:01.505][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.505][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.506][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-12 18:07:01.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-12 18:07:01.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.512][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-12 18:07:01.513][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-12 18:07:01.513][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.513][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.514][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-12 18:07:01.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-12 18:07:01.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.515][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-12 18:07:01.515][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-12 18:07:01.515][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.516][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.516][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:01.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:01.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.517][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:01.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:01.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.518][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:01.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:01.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.521][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:01.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:01.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.525][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:01.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:01.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.527][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:01.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:01.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.535][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:01.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:01.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.536][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:01.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:01.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.538][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:01.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:01.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.539][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:01.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:01.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:01.546][self$createEntryFromContent] Accession numbers: 26747.
biodb.TRACE[2025-11-12 18:07:01.547][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:01.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:01.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.558][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:01.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:01.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.567][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:01.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:01.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.568][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:01.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:01.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.569][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:01.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:01.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:01.570][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:01.571][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:01.571][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:01.573][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:01.573][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:01.573][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:01.574][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:01.574][private$loadEntries] Creating entries from ids [1]: "59285".
biodb.DEBUG[2025-11-12 18:07:01.575][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-12 18:07:01.577][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-12 18:07:01.580][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/59285.xml.
biodb.DEBUG[2025-11-12 18:07:01.580][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-12 18:07:01.581][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-12 18:07:01.581][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-12 18:07:01.582][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:01.582][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:01.582][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:01.587][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:01.588][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:01.588][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:01.588][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:01.597][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:01.598][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:01.598][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.599][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.599][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:01.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:01.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.601][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-12 18:07:01.601][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-12 18:07:01.601][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.602][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.602][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-12 18:07:01.602][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-12 18:07:01.603][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.603][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.603][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-12 18:07:01.604][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-12 18:07:01.604][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.604][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.605][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-12 18:07:01.605][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-12 18:07:01.605][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.606][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.606][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-12 18:07:01.606][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-12 18:07:01.607][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.609][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.610][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-12 18:07:01.611][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:01.612][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.613][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.614][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:01.615][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:01.616][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.617][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.620][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-12 18:07:01.626][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-12 18:07:01.627][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.627][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.628][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-12 18:07:01.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-12 18:07:01.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.629][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-12 18:07:01.629][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-12 18:07:01.630][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.630][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.630][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-12 18:07:01.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-12 18:07:01.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.631][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-12 18:07:01.632][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-12 18:07:01.632][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.632][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.633][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:01.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:01.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.634][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:01.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:01.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.635][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:01.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:01.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.636][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:01.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:01.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.643][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:01.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:01.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.646][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:01.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:01.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.664][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:01.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:01.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.668][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:01.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:01.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.670][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:01.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:01.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.671][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:01.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:01.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:01.674][self$createEntryFromContent] Accession numbers: 59285.
biodb.TRACE[2025-11-12 18:07:01.675][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:01.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:01.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.676][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:01.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:01.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.688][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:01.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:01.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.692][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:01.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:01.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.695][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:01.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:01.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:01.709][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:01.712][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:01.713][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:01.717][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:01.717][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:01.718][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:01.718][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:01.718][private$loadEntries] Creating entries from ids [1]: "75174".
biodb.DEBUG[2025-11-12 18:07:01.719][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-12 18:07:01.720][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-12 18:07:01.721][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75174.xml.
biodb.DEBUG[2025-11-12 18:07:01.722][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-12 18:07:01.722][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-12 18:07:01.723][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-12 18:07:01.723][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:01.723][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:01.724][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:01.725][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:01.726][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:01.726][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:01.726][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.TRACE[2025-11-12 18:07:01.727][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:01.727][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:01.728][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.728][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.728][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:01.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:01.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.729][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-12 18:07:01.730][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-12 18:07:01.730][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.730][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.738][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-12 18:07:01.738][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-12 18:07:01.739][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.739][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.739][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-12 18:07:01.740][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-12 18:07:01.740][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.740][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.741][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-12 18:07:01.741][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-12 18:07:01.741][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.741][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.742][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-12 18:07:01.742][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-12 18:07:01.742][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.743][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.743][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-12 18:07:01.746][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:01.747][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.751][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.752][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:01.752][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:01.752][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.753][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.755][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-12 18:07:01.756][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-12 18:07:01.756][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.756][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.757][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-12 18:07:01.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-12 18:07:01.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.758][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-12 18:07:01.759][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-12 18:07:01.759][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.761][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.761][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-12 18:07:01.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-12 18:07:01.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.762][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-12 18:07:01.797][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-12 18:07:01.797][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.798][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.798][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:01.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:01.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.800][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:01.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:01.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.801][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:01.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:01.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.802][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:01.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:01.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.803][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:01.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:01.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.815][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:01.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:01.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.816][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:01.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:01.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.817][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:01.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:01.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.818][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:01.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:01.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.819][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:01.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:01.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:01.821][self$createEntryFromContent] Accession numbers: 75174.
biodb.TRACE[2025-11-12 18:07:01.821][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:01.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:01.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.822][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:01.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:01.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.823][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:01.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:01.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.827][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:01.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:01.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.830][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:01.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:01.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:01.833][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:01.834][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:01.844][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:01.847][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:01.847][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:01.847][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:01.848][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:01.848][private$loadEntries] Creating entries from ids [1]: "15441".
biodb.DEBUG[2025-11-12 18:07:01.848][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-12 18:07:01.849][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-12 18:07:01.851][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15441.xml.
biodb.DEBUG[2025-11-12 18:07:01.852][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-12 18:07:01.852][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-12 18:07:01.853][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-12 18:07:01.853][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:01.853][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:01.854][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:01.856][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:01.856][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:01.856][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:01.857][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:01.858][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:01.858][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:01.858][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.859][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.859][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:01.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:01.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.869][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-12 18:07:01.870][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-12 18:07:01.870][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.870][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.871][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-12 18:07:01.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-12 18:07:01.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.876][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-12 18:07:01.876][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-12 18:07:01.877][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.877][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.877][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-12 18:07:01.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-12 18:07:01.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.881][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-12 18:07:01.882][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-12 18:07:01.882][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.882][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.883][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-12 18:07:01.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-12 18:07:01.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.884][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-12 18:07:01.884][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-12 18:07:01.884][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.885][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.885][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-12 18:07:01.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-12 18:07:01.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.886][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-12 18:07:01.886][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-12 18:07:01.887][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.887][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.887][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-12 18:07:01.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-12 18:07:01.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.894][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-12 18:07:01.909][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:01.909][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.910][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.910][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-12 18:07:01.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:01.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.912][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:01.912][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:01.913][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.913][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.913][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:01.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:01.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.914][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-12 18:07:01.915][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-12 18:07:01.915][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.915][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.916][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-12 18:07:01.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-12 18:07:01.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.917][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-12 18:07:01.918][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-12 18:07:01.918][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.918][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.923][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-12 18:07:01.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-12 18:07:01.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.929][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-12 18:07:01.930][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-12 18:07:01.930][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.931][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.932][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-12 18:07:01.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-12 18:07:01.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.941][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:01.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:01.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.942][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:01.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:01.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.943][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:01.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:01.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.944][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:01.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:01.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.945][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:01.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:01.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.947][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:01.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:01.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.948][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:01.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:01.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.949][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:01.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:01.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.958][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:01.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:01.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.959][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:01.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:01.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:01.961][self$createEntryFromContent] Accession numbers: 15441.
biodb.TRACE[2025-11-12 18:07:01.961][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:01.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:01.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.962][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:01.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:01.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.963][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:01.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:01.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:01.971][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:01.972][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:01.972][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:01.974][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:01.975][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:01.975][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:01.975][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:01.976][private$loadEntries] Creating entries from ids [1]: "15442".
biodb.DEBUG[2025-11-12 18:07:01.976][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-12 18:07:01.976][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-12 18:07:01.979][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15442.xml.
biodb.DEBUG[2025-11-12 18:07:01.980][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-12 18:07:01.980][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-12 18:07:01.980][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-12 18:07:01.981][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:01.981][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:01.982][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:01.983][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:01.984][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:01.984][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:01.984][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.TRACE[2025-11-12 18:07:01.985][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:01.985][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:01.986][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.986][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.986][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:01.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:01.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.987][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-12 18:07:01.988][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-12 18:07:01.997][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:01.998][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:01.999][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-12 18:07:02.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-12 18:07:02.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.002][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-12 18:07:02.003][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-12 18:07:02.004][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.007][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.008][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-12 18:07:02.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-12 18:07:02.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.014][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-12 18:07:02.014][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-12 18:07:02.015][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.015][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.021][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-12 18:07:02.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-12 18:07:02.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.030][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-12 18:07:02.030][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-12 18:07:02.030][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.031][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.031][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-12 18:07:02.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-12 18:07:02.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.032][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-12 18:07:02.032][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-12 18:07:02.033][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.033][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.033][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-12 18:07:02.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-12 18:07:02.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.041][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-12 18:07:02.044][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:02.045][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.046][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.049][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-12 18:07:02.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:02.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.065][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:02.066][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:02.066][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.066][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.067][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:02.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:02.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.068][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-12 18:07:02.069][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-12 18:07:02.069][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.069][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.070][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-12 18:07:02.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-12 18:07:02.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.071][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-12 18:07:02.071][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-12 18:07:02.071][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.072][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.072][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-12 18:07:02.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-12 18:07:02.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.078][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-12 18:07:02.079][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-12 18:07:02.080][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.080][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.081][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-12 18:07:02.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-12 18:07:02.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.084][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:02.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:02.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.098][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:02.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:02.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.100][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:02.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:02.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.101][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:02.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:02.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.102][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:02.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:02.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.103][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:02.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:02.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.105][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:02.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:02.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.106][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:02.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:02.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.109][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:02.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:02.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.113][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:02.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:02.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:02.116][self$createEntryFromContent] Accession numbers: 15442.
biodb.TRACE[2025-11-12 18:07:02.117][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:02.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:02.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.120][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:02.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:02.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.121][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:02.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:02.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:02.123][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:02.123][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:02.123][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:02.125][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:02.125][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:02.126][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:02.126][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:02.126][private$loadEntries] Creating entries from ids [1]: "57310".
biodb.DEBUG[2025-11-12 18:07:02.127][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-12 18:07:02.127][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-12 18:07:02.129][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/57310.xml.
biodb.DEBUG[2025-11-12 18:07:02.129][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-12 18:07:02.130][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-12 18:07:02.130][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-12 18:07:02.130][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:02.134][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:02.134][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:02.136][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:02.137][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:02.137][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:02.137][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:02.138][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:02.138][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:02.139][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.139][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.139][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:02.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:02.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.141][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-12 18:07:02.141][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-12 18:07:02.141][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.141][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.142][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-12 18:07:02.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-12 18:07:02.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.158][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-12 18:07:02.160][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-12 18:07:02.163][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.163][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.163][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-12 18:07:02.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-12 18:07:02.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.165][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-12 18:07:02.165][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-12 18:07:02.165][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.166][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.166][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-12 18:07:02.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-12 18:07:02.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.167][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-12 18:07:02.167][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-12 18:07:02.168][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.168][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.168][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-12 18:07:02.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-12 18:07:02.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.169][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-12 18:07:02.170][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-12 18:07:02.170][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.170][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.184][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-12 18:07:02.185][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:02.185][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.185][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.186][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-12 18:07:02.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:02.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.187][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:02.188][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:02.188][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.188][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.189][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:02.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:02.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.190][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-12 18:07:02.190][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-12 18:07:02.190][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.191][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.191][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-12 18:07:02.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-12 18:07:02.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.192][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-12 18:07:02.193][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-12 18:07:02.193][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.193][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.194][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-12 18:07:02.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-12 18:07:02.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.201][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-12 18:07:02.202][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-12 18:07:02.202][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.205][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.208][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-12 18:07:02.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-12 18:07:02.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.211][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:02.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:02.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.226][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:02.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:02.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.227][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:02.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:02.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.232][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:02.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:02.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.233][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:02.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:02.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.234][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:02.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:02.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.237][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:02.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:02.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.240][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:02.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:02.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.246][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:02.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:02.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.248][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:02.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:02.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:02.249][self$createEntryFromContent] Accession numbers: 57310.
biodb.TRACE[2025-11-12 18:07:02.249][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:02.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:02.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.250][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:02.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:02.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.251][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:02.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:02.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:02.253][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:02.253][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:02.253][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:02.255][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:02.255][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:02.256][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:02.256][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:02.256][private$loadEntries] Creating entries from ids [1]: "66216".
biodb.DEBUG[2025-11-12 18:07:02.256][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-12 18:07:02.257][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-12 18:07:02.259][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66216.xml.
biodb.DEBUG[2025-11-12 18:07:02.260][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-12 18:07:02.260][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-12 18:07:02.261][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-12 18:07:02.261][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:02.262][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:02.262][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:02.264][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:02.264][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:02.265][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:02.265][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[2025-11-12 18:07:02.266][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:02.266][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:02.266][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.267][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.267][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:02.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:02.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.273][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-12 18:07:02.274][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-12 18:07:02.276][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.276][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.278][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-12 18:07:02.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-12 18:07:02.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.281][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-12 18:07:02.282][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-12 18:07:02.290][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.291][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.291][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-12 18:07:02.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-12 18:07:02.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.293][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-12 18:07:02.294][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-12 18:07:02.295][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.296][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.298][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-12 18:07:02.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-12 18:07:02.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.303][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-12 18:07:02.303][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-12 18:07:02.304][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.307][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.308][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-12 18:07:02.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-12 18:07:02.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.309][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-12 18:07:02.309][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-12 18:07:02.310][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.310][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.310][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-12 18:07:02.310][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:02.311][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.311][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.311][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-12 18:07:02.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:02.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.313][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:02.313][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:02.313][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.323][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.323][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:02.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:02.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.325][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-12 18:07:02.325][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-12 18:07:02.325][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.326][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.326][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-12 18:07:02.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-12 18:07:02.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.327][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-12 18:07:02.328][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-12 18:07:02.328][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.328][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.328][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-12 18:07:02.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-12 18:07:02.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.329][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-12 18:07:02.330][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-12 18:07:02.330][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.330][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.331][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-12 18:07:02.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-12 18:07:02.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.332][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:02.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:02.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.341][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:02.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:02.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.343][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:02.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:02.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.344][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:02.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:02.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.345][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:02.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:02.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.346][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:02.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:02.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.347][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:02.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:02.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.348][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:02.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:02.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.349][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:02.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:02.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.350][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:02.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:02.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:02.365][self$createEntryFromContent] Accession numbers: 66216.
biodb.TRACE[2025-11-12 18:07:02.366][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:02.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:02.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.374][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:02.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:02.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.375][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:02.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:02.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:02.376][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:02.376][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:02.377][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:02.384][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:02.384][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:02.385][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:02.385][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:02.385][private$loadEntries] Creating entries from ids [1]: "70860".
biodb.DEBUG[2025-11-12 18:07:02.386][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-12 18:07:02.386][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-12 18:07:02.388][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70860.xml.
biodb.DEBUG[2025-11-12 18:07:02.389][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-12 18:07:02.389][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-12 18:07:02.390][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-12 18:07:02.391][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:02.391][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:02.391][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:02.393][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:02.394][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:02.394][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:02.394][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:02.395][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:02.395][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:02.396][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.396][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.396][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:02.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:02.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.406][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-12 18:07:02.406][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-12 18:07:02.406][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.407][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.407][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-12 18:07:02.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-12 18:07:02.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.408][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-12 18:07:02.409][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-12 18:07:02.409][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.409][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.409][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-12 18:07:02.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-12 18:07:02.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.411][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-12 18:07:02.411][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-12 18:07:02.411][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.411][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.412][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-12 18:07:02.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-12 18:07:02.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.413][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-12 18:07:02.413][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-12 18:07:02.413][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.414][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.414][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-12 18:07:02.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-12 18:07:02.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.431][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-12 18:07:02.432][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-12 18:07:02.432][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.433][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.434][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-12 18:07:02.435][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:02.435][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.436][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.444][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-12 18:07:02.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:02.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.445][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:02.446][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:02.446][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.446][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.447][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:02.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:02.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.448][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-12 18:07:02.448][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-12 18:07:02.448][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.449][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.449][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-12 18:07:02.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-12 18:07:02.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.450][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-12 18:07:02.450][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-12 18:07:02.451][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.451][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.451][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-12 18:07:02.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-12 18:07:02.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.475][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-12 18:07:02.476][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-12 18:07:02.479][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.480][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.480][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-12 18:07:02.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-12 18:07:02.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.482][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:02.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:02.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.483][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:02.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:02.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.493][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:02.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:02.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.495][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:02.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:02.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.496][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:02.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:02.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.497][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:02.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:02.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.498][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:02.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:02.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.500][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:02.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:02.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.501][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:02.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:02.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.502][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:02.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:02.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:02.508][self$createEntryFromContent] Accession numbers: 70860.
biodb.TRACE[2025-11-12 18:07:02.509][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:02.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:02.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.512][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:02.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:02.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.515][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:02.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:02.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:02.517][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:02.517][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:02.517][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:02.519][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:02.520][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:02.520][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:02.520][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:02.520][private$loadEntries] Creating entries from ids [1]: "70861".
biodb.DEBUG[2025-11-12 18:07:02.521][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-12 18:07:02.521][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-12 18:07:02.523][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70861.xml.
biodb.DEBUG[2025-11-12 18:07:02.523][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-12 18:07:02.523][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-12 18:07:02.524][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-12 18:07:02.524][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:02.525][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:02.525][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:02.527][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:02.527][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:02.527][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:02.527][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:02.528][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:02.529][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:02.529][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.529][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.530][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:02.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:02.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.531][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-12 18:07:02.531][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-12 18:07:02.532][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.532][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.532][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-12 18:07:02.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-12 18:07:02.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.533][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-12 18:07:02.537][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-12 18:07:02.537][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.538][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.538][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-12 18:07:02.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-12 18:07:02.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.539][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-12 18:07:02.540][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-12 18:07:02.540][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.545][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.546][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-12 18:07:02.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-12 18:07:02.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.550][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-12 18:07:02.551][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-12 18:07:02.552][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.553][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.555][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-12 18:07:02.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-12 18:07:02.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.556][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-12 18:07:02.556][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-12 18:07:02.557][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.557][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.557][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-12 18:07:02.558][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:02.558][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.558][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.559][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-12 18:07:02.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:02.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.560][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:02.560][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:02.560][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.561][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.561][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:02.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:02.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.563][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-12 18:07:02.563][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-12 18:07:02.563][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.564][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.565][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-12 18:07:02.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-12 18:07:02.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.572][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-12 18:07:02.573][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-12 18:07:02.574][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.574][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.575][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-12 18:07:02.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-12 18:07:02.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.602][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-12 18:07:02.603][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-12 18:07:02.603][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.603][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.604][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-12 18:07:02.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-12 18:07:02.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.611][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:02.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:02.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.614][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:02.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:02.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.624][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:02.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:02.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.625][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:02.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:02.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.626][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:02.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:02.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.628][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:02.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:02.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.629][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:02.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:02.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.630][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:02.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:02.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.631][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:02.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:02.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.632][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:02.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:02.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:02.645][self$createEntryFromContent] Accession numbers: 70861.
biodb.TRACE[2025-11-12 18:07:02.645][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:02.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:02.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.646][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:02.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:02.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.648][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:02.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:02.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:02.649][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:02.649][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:02.649][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:02.652][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:02.653][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:02.653][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:02.654][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:02.654][private$loadEntries] Creating entries from ids [1]: "78662".
biodb.DEBUG[2025-11-12 18:07:02.654][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-12 18:07:02.655][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-12 18:07:02.657][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/78662.xml.
biodb.DEBUG[2025-11-12 18:07:02.657][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-12 18:07:02.658][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-12 18:07:02.658][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-12 18:07:02.659][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:02.659][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:02.660][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:02.662][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:02.662][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:02.662][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:02.662][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:02.663][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:02.664][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:02.664][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.664][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.665][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:02.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:02.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.668][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-12 18:07:02.671][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-12 18:07:02.675][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.675][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.676][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-12 18:07:02.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-12 18:07:02.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.677][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-12 18:07:02.678][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-12 18:07:02.678][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.678][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.679][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-12 18:07:02.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-12 18:07:02.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.680][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-12 18:07:02.680][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-12 18:07:02.680][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.698][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.699][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-12 18:07:02.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-12 18:07:02.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.700][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-12 18:07:02.700][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-12 18:07:02.701][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.701][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.701][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-12 18:07:02.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-12 18:07:02.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.702][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-12 18:07:02.703][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-12 18:07:02.703][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.703][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.704][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-12 18:07:02.704][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:02.704][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.704][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.705][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-12 18:07:02.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:02.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.706][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:02.706][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:02.706][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.707][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.707][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:02.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:02.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.721][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-12 18:07:02.722][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-12 18:07:02.722][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.722][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.723][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-12 18:07:02.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-12 18:07:02.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.724][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-12 18:07:02.725][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-12 18:07:02.725][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.725][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.725][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-12 18:07:02.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-12 18:07:02.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.730][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-12 18:07:02.731][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-12 18:07:02.732][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.733][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.734][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-12 18:07:02.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-12 18:07:02.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.737][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:02.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:02.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.752][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:02.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:02.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.754][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:02.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:02.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.755][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:02.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:02.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.757][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:02.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:02.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.758][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:02.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:02.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.759][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:02.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:02.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.761][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:02.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:02.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.765][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:02.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:02.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.768][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:02.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:02.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:02.771][self$createEntryFromContent] Accession numbers: 78662.
biodb.TRACE[2025-11-12 18:07:02.772][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:02.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:02.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.789][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:02.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:02.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.790][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:02.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:02.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:02.791][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:02.792][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:02.792][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:02.794][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:02.795][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:02.795][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:02.795][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:02.796][private$loadEntries] Creating entries from ids [1]: "85084".
biodb.DEBUG[2025-11-12 18:07:02.796][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-12 18:07:02.796][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-12 18:07:02.798][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85084.xml.
biodb.DEBUG[2025-11-12 18:07:02.798][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-12 18:07:02.799][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-12 18:07:02.799][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-12 18:07:02.799][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:02.800][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:02.800][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:02.802][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:02.802][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:02.803][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:02.803][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:02.808][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:02.808][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:02.809][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.809][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.810][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:02.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:02.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.811][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-12 18:07:02.811][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-12 18:07:02.811][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.812][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.812][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-12 18:07:02.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-12 18:07:02.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.813][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-12 18:07:02.814][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-12 18:07:02.814][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.814][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.815][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-12 18:07:02.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-12 18:07:02.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.816][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-12 18:07:02.836][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-12 18:07:02.837][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.837][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.838][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-12 18:07:02.838][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-12 18:07:02.838][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.838][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.839][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-12 18:07:02.839][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-12 18:07:02.839][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.840][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.840][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-12 18:07:02.840][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:02.841][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.841][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.841][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-12 18:07:02.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:02.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.843][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:02.843][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:02.843][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.843][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.844][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:02.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:02.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.845][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-12 18:07:02.845][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-12 18:07:02.845][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.846][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.847][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-12 18:07:02.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-12 18:07:02.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.858][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-12 18:07:02.859][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-12 18:07:02.860][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.861][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.862][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-12 18:07:02.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-12 18:07:02.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.879][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-12 18:07:02.880][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-12 18:07:02.880][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.880][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.881][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:02.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:02.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.882][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:02.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:02.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.883][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:02.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:02.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.884][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:02.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:02.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.885][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:02.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:02.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.886][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:02.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:02.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.887][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:02.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:02.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.900][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:02.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:02.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.904][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:02.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:02.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.906][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:02.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:02.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:02.907][self$createEntryFromContent] Accession numbers: 85084.
biodb.TRACE[2025-11-12 18:07:02.908][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:02.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:02.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.909][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:02.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:02.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.918][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:02.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:02.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:02.919][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:02.920][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:02.920][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:02.922][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:02.922][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:02.923][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:02.923][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:02.923][private$loadEntries] Creating entries from ids [1]: "85086".
biodb.DEBUG[2025-11-12 18:07:02.924][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-12 18:07:02.924][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-12 18:07:02.937][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85086.xml.
biodb.DEBUG[2025-11-12 18:07:02.938][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-12 18:07:02.939][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-12 18:07:02.939][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-12 18:07:02.940][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:02.940][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:02.941][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:02.943][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:02.943][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:02.944][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:02.944][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:02.945][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:02.945][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:02.946][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.946][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.952][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:02.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:02.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.957][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-12 18:07:02.958][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-12 18:07:02.959][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.960][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.962][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-12 18:07:02.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-12 18:07:02.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.974][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-12 18:07:02.974][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-12 18:07:02.975][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.975][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.975][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-12 18:07:02.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-12 18:07:02.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.977][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-12 18:07:02.977][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-12 18:07:02.977][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.978][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.978][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-12 18:07:02.978][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-12 18:07:02.978][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.979][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.979][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-12 18:07:02.979][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-12 18:07:02.980][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.980][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.980][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-12 18:07:02.981][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:02.981][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.981][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.981][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-12 18:07:02.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:02.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.983][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:02.986][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:02.987][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.987][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.988][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:02.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:02.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:02.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:02.991][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-12 18:07:03.001][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-12 18:07:03.002][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.002][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.003][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-12 18:07:03.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-12 18:07:03.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.004][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-12 18:07:03.004][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-12 18:07:03.005][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.005][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.005][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-12 18:07:03.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-12 18:07:03.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.018][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-12 18:07:03.020][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-12 18:07:03.026][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.026][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.027][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:03.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:03.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.028][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:03.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:03.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.029][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:03.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:03.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.030][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:03.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:03.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.031][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:03.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:03.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.033][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:03.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:03.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.034][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:03.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:03.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.035][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:03.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:03.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.046][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:03.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:03.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.048][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:03.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:03.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:03.049][self$createEntryFromContent] Accession numbers: 85086.
biodb.TRACE[2025-11-12 18:07:03.049][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:03.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:03.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.050][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:03.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:03.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.051][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:03.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:03.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:03.052][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:03.053][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:03.053][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:03.055][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:03.055][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:03.066][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:03.067][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:03.067][private$loadEntries] Creating entries from ids [1]: "88123".
biodb.DEBUG[2025-11-12 18:07:03.068][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-12 18:07:03.068][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-12 18:07:03.070][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/88123.xml.
biodb.DEBUG[2025-11-12 18:07:03.070][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-12 18:07:03.071][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-12 18:07:03.071][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-12 18:07:03.072][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:03.072][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:03.073][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:03.075][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:03.075][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:03.076][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:03.076][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:03.077][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:03.077][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:03.078][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.090][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.091][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:03.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:03.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.092][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-12 18:07:03.093][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-12 18:07:03.093][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.093][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.094][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-12 18:07:03.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-12 18:07:03.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.095][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-12 18:07:03.095][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-12 18:07:03.096][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.096][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.096][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-12 18:07:03.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-12 18:07:03.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.101][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-12 18:07:03.102][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-12 18:07:03.103][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.104][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.105][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-12 18:07:03.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-12 18:07:03.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.108][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-12 18:07:03.109][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-12 18:07:03.109][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.110][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.117][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-12 18:07:03.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-12 18:07:03.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.119][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-12 18:07:03.119][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-12 18:07:03.119][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.119][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.120][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-12 18:07:03.120][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:03.121][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.121][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.121][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-12 18:07:03.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:03.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.122][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:03.123][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:03.123][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.123][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.124][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:03.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:03.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.125][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-12 18:07:03.125][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-12 18:07:03.125][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.126][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.126][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-12 18:07:03.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-12 18:07:03.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.136][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-12 18:07:03.137][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-12 18:07:03.137][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.137][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.138][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-12 18:07:03.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-12 18:07:03.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.139][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-12 18:07:03.139][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-12 18:07:03.140][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.140][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.140][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-12 18:07:03.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-12 18:07:03.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.142][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:03.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:03.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.143][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:03.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:03.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.145][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:03.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:03.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.149][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:03.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:03.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.152][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:03.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:03.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.155][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:03.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:03.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.174][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:03.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:03.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.183][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:03.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:03.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.185][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:03.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:03.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.186][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:03.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:03.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:03.187][self$createEntryFromContent] Accession numbers: 88123.
biodb.TRACE[2025-11-12 18:07:03.188][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:03.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:03.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.189][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:03.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:03.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.190][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:03.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:03.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:03.191][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:03.191][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:03.192][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:03.205][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:03.205][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:03.205][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:03.206][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:03.206][private$loadEntries] Creating entries from ids [1]: "134117".
biodb.DEBUG[2025-11-12 18:07:03.206][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-12 18:07:03.207][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-12 18:07:03.209][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/134117.xml.
biodb.DEBUG[2025-11-12 18:07:03.209][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-12 18:07:03.210][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-12 18:07:03.210][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-12 18:07:03.211][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:03.211][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:03.211][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:03.213][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:03.214][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:03.214][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:03.214][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:03.215][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:03.216][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:03.216][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.216][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.217][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:03.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:03.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.220][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-12 18:07:03.222][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-12 18:07:03.223][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.224][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.225][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-12 18:07:03.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-12 18:07:03.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.235][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-12 18:07:03.236][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-12 18:07:03.241][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.242][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.242][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-12 18:07:03.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-12 18:07:03.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.244][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-12 18:07:03.244][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-12 18:07:03.244][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.245][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.245][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-12 18:07:03.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-12 18:07:03.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.246][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-12 18:07:03.247][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-12 18:07:03.247][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.247][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.248][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-12 18:07:03.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-12 18:07:03.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.249][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-12 18:07:03.249][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-12 18:07:03.250][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.251][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.268][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-12 18:07:03.269][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:03.270][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.270][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.271][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-12 18:07:03.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:03.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.272][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:03.272][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:03.272][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.273][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.273][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:03.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:03.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.274][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-12 18:07:03.275][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-12 18:07:03.275][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.275][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.275][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-12 18:07:03.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-12 18:07:03.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.277][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-12 18:07:03.277][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-12 18:07:03.277][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.277][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.281][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-12 18:07:03.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-12 18:07:03.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.291][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-12 18:07:03.291][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-12 18:07:03.292][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.294][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.296][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-12 18:07:03.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-12 18:07:03.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.304][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:03.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:03.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.305][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:03.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:03.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.314][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:03.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:03.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.315][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:03.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:03.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.316][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:03.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:03.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.317][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:03.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:03.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.318][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:03.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:03.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.320][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:03.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:03.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.327][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:03.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:03.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.328][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:03.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:03.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:03.329][self$createEntryFromContent] Accession numbers: 134117.
biodb.TRACE[2025-11-12 18:07:03.330][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:03.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:03.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.331][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:03.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:03.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.332][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:03.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:03.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:03.333][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:03.333][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:03.334][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:03.344][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:03.345][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:03.345][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:03.345][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[2025-11-12 18:07:03.346][private$loadEntries] Creating entries from ids [1]: "138307".
biodb.DEBUG[2025-11-12 18:07:03.349][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-12 18:07:03.350][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-12 18:07:03.352][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/138307.xml.
biodb.DEBUG[2025-11-12 18:07:03.353][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-12 18:07:03.354][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-12 18:07:03.354][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-12 18:07:03.355][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:03.355][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:03.356][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:03.358][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:03.358][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:03.359][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:03.359][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:03.360][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:03.361][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:03.376][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.377][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.377][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:03.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:03.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.379][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-12 18:07:03.379][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-12 18:07:03.379][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.379][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.380][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-12 18:07:03.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-12 18:07:03.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.381][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-12 18:07:03.381][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-12 18:07:03.382][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.382][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.382][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-12 18:07:03.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-12 18:07:03.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.393][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-12 18:07:03.404][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-12 18:07:03.404][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.404][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.405][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-12 18:07:03.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-12 18:07:03.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.406][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-12 18:07:03.407][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-12 18:07:03.407][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.407][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.407][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-12 18:07:03.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-12 18:07:03.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.408][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-12 18:07:03.409][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-12 18:07:03.409][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.409][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.410][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-12 18:07:03.410][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:03.410][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.410][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.411][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-12 18:07:03.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:03.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.412][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:03.412][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:03.412][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.413][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.413][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:03.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:03.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.422][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-12 18:07:03.423][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-12 18:07:03.423][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.423][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.424][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-12 18:07:03.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-12 18:07:03.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.425][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-12 18:07:03.425][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-12 18:07:03.425][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.426][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.426][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-12 18:07:03.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-12 18:07:03.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.427][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-12 18:07:03.428][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-12 18:07:03.428][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.428][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.429][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-12 18:07:03.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-12 18:07:03.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.443][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:03.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:03.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.445][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:03.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:03.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.447][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:03.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:03.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.448][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:03.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:03.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.449][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:03.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:03.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.451][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:03.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:03.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.457][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:03.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:03.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.461][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:03.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:03.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.464][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:03.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:03.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.465][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:03.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:03.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:03.467][self$createEntryFromContent] Accession numbers: 138307.
biodb.TRACE[2025-11-12 18:07:03.467][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:03.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:03.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.468][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:03.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:03.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.470][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:03.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:03.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:03.471][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:03.471][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:03.471][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:03.475][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:03.476][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:03.477][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:03.478][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:03.479][private$loadEntries] Creating entries from ids [1]: "176803".
biodb.DEBUG[2025-11-12 18:07:03.480][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-12 18:07:03.482][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-12 18:07:03.484][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176803.xml.
biodb.DEBUG[2025-11-12 18:07:03.484][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-12 18:07:03.485][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-12 18:07:03.485][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-12 18:07:03.486][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:03.486][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:03.486][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:03.488][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:03.488][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:03.489][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:03.489][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:03.490][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:03.490][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:03.490][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.491][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.491][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:03.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:03.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.492][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-12 18:07:03.492][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-12 18:07:03.493][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.499][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.499][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-12 18:07:03.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-12 18:07:03.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.501][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-12 18:07:03.501][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-12 18:07:03.501][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.501][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.502][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-12 18:07:03.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-12 18:07:03.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.515][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-12 18:07:03.516][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-12 18:07:03.516][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.516][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.517][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-12 18:07:03.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-12 18:07:03.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.518][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-12 18:07:03.518][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-12 18:07:03.519][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.519][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.519][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-12 18:07:03.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-12 18:07:03.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.520][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-12 18:07:03.521][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-12 18:07:03.521][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.521][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.521][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-12 18:07:03.522][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:03.522][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.522][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.523][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-12 18:07:03.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:03.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.524][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:03.524][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:03.524][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.525][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.525][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:03.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:03.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.537][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-12 18:07:03.537][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-12 18:07:03.546][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.547][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.550][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-12 18:07:03.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-12 18:07:03.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.559][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-12 18:07:03.560][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-12 18:07:03.561][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.562][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.563][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-12 18:07:03.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-12 18:07:03.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.566][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-12 18:07:03.567][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-12 18:07:03.572][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.573][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.573][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-12 18:07:03.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-12 18:07:03.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.574][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:03.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:03.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.575][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:03.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:03.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.576][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:03.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:03.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.580][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:03.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:03.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.583][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:03.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:03.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.599][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:03.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:03.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.603][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:03.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:03.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.606][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:03.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:03.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.610][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:03.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:03.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.611][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:03.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:03.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:03.617][self$createEntryFromContent] Accession numbers: 176803.
biodb.TRACE[2025-11-12 18:07:03.618][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:03.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:03.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.624][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:03.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:03.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.626][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:03.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:03.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:03.627][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:03.627][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:03.627][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:03.629][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:03.630][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:03.630][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:03.630][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[2025-11-12 18:07:03.631][private$loadEntries] Creating entries from ids [1]: "176962".
biodb.DEBUG[2025-11-12 18:07:03.632][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-12 18:07:03.634][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-12 18:07:03.641][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176962.xml.
biodb.DEBUG[2025-11-12 18:07:03.642][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-12 18:07:03.642][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-12 18:07:03.643][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-12 18:07:03.643][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:03.643][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:03.644][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:03.646][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:03.646][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:03.646][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:03.647][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.TRACE[2025-11-12 18:07:03.648][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:03.648][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:03.648][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.648][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.649][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:03.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:03.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.666][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-12 18:07:03.667][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-12 18:07:03.667][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.667][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.668][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-12 18:07:03.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-12 18:07:03.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.669][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-12 18:07:03.670][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-12 18:07:03.670][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.670][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.671][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-12 18:07:03.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-12 18:07:03.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.672][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-12 18:07:03.672][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-12 18:07:03.673][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.673][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.673][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-12 18:07:03.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-12 18:07:03.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.675][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-12 18:07:03.675][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-12 18:07:03.675][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.678][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.678][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-12 18:07:03.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-12 18:07:03.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.680][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-12 18:07:03.680][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-12 18:07:03.680][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.681][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.681][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-12 18:07:03.681][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:03.682][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.682][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.682][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-12 18:07:03.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:03.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.684][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:03.684][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:03.684][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.685][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.685][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:03.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:03.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.686][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-12 18:07:03.686][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-12 18:07:03.687][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.708][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.710][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-12 18:07:03.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-12 18:07:03.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.719][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-12 18:07:03.720][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-12 18:07:03.720][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.720][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.721][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-12 18:07:03.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-12 18:07:03.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.722][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-12 18:07:03.722][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-12 18:07:03.723][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.723][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.723][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-12 18:07:03.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-12 18:07:03.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.724][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:03.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:03.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.725][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:03.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:03.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.727][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:03.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:03.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.733][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:03.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:03.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.735][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:03.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:03.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.736][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:03.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:03.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.737][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:03.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:03.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.738][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:03.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:03.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.740][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:03.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:03.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.741][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:03.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:03.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:03.742][self$createEntryFromContent] Accession numbers: 176962.
biodb.TRACE[2025-11-12 18:07:03.742][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:03.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:03.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.745][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:03.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:03.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.746][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:03.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:03.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:03.747][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:03.747][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:03.747][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:03.749][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:03.750][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:03.750][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:03.750][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:03.751][private$loadEntries] Creating entries from ids [1]: "198655".
biodb.DEBUG[2025-11-12 18:07:03.751][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-12 18:07:03.751][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-12 18:07:03.752][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/198655.xml.
biodb.DEBUG[2025-11-12 18:07:03.753][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-12 18:07:03.753][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-12 18:07:03.754][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-12 18:07:03.754][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:03.755][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:03.755][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:03.757][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:03.758][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:03.758][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:03.758][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:03.759][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:03.760][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:03.774][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.776][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.779][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:03.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:03.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.781][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-12 18:07:03.781][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-12 18:07:03.782][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.782][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.793][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-12 18:07:03.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-12 18:07:03.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.795][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-12 18:07:03.796][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-12 18:07:03.797][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.798][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.799][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-12 18:07:03.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-12 18:07:03.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.802][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-12 18:07:03.803][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-12 18:07:03.804][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.809][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.809][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-12 18:07:03.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-12 18:07:03.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.811][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-12 18:07:03.811][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-12 18:07:03.811][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.811][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.812][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-12 18:07:03.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-12 18:07:03.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.813][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-12 18:07:03.813][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-12 18:07:03.813][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.814][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.814][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-12 18:07:03.814][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:03.815][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.815][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.815][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-12 18:07:03.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:03.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.816][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:03.816][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:03.817][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.817][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.817][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:03.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:03.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.821][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-12 18:07:03.821][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-12 18:07:03.821][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.822][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.822][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-12 18:07:03.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-12 18:07:03.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.823][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-12 18:07:03.824][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-12 18:07:03.824][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.824][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.827][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-12 18:07:03.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-12 18:07:03.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.828][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-12 18:07:03.828][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-12 18:07:03.829][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.829][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.829][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-12 18:07:03.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-12 18:07:03.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.830][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:03.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:03.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.832][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:03.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:03.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.833][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:03.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:03.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.846][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:03.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:03.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.847][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:03.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:03.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.848][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:03.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:03.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.853][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:03.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:03.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.862][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:03.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:03.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.863][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:03.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:03.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.864][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:03.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:03.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:03.865][self$createEntryFromContent] Accession numbers: 198655.
biodb.TRACE[2025-11-12 18:07:03.866][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:03.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:03.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.869][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:03.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:03.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.872][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:03.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:03.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:03.886][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:03.887][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:03.887][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:03.889][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:03.889][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:03.890][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:03.890][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:03.890][private$loadEntries] Creating entries from ids [1]: "215045".
biodb.DEBUG[2025-11-12 18:07:03.890][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-12 18:07:03.891][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-12 18:07:03.892][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/215045.xml.
biodb.DEBUG[2025-11-12 18:07:03.893][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-12 18:07:03.893][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-12 18:07:03.894][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-12 18:07:03.894][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:03.894][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:03.895][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:03.897][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:03.897][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:03.897][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:03.897][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:03.899][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:03.899][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:03.899][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.899][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.900][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:03.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:03.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.901][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-12 18:07:03.902][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-12 18:07:03.902][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.902][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.903][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-12 18:07:03.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-12 18:07:03.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.904][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-12 18:07:03.904][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-12 18:07:03.905][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.905][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.905][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-12 18:07:03.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-12 18:07:03.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.907][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-12 18:07:03.907][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-12 18:07:03.907][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.907][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.908][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-12 18:07:03.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-12 18:07:03.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.909][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-12 18:07:03.909][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-12 18:07:03.909][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.910][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.910][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-12 18:07:03.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-12 18:07:03.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.911][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-12 18:07:03.920][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-12 18:07:03.920][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.921][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.924][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-12 18:07:03.924][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:03.925][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.925][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.926][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-12 18:07:03.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:03.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.927][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:03.928][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:03.928][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.928][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.928][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:03.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:03.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.930][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-12 18:07:03.937][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-12 18:07:03.938][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.938][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.939][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-12 18:07:03.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-12 18:07:03.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.940][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-12 18:07:03.940][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-12 18:07:03.940][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.941][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.941][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-12 18:07:03.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-12 18:07:03.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.942][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-12 18:07:03.942][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-12 18:07:03.944][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.945][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.946][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-12 18:07:03.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-12 18:07:03.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.957][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:03.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:03.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.958][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:03.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:03.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.959][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:03.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:03.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.960][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:03.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:03.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.961][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:03.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:03.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.963][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:03.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:03.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.964][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:03.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:03.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.965][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:03.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:03.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.967][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:03.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:03.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.970][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:03.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:03.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:03.973][self$createEntryFromContent] Accession numbers: 215045.
biodb.TRACE[2025-11-12 18:07:03.974][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:03.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:03.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.982][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:03.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:03.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:03.986][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:03.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:03.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:03.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-11-12 18:07:04.012][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-12 18:07:04.013][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-12 18:07:04.014][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-11-12 18:07:04.019][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-12 18:07:04.021][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:04.021][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:04.021][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:04.023][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:04.024][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:04.024][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:04.024][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:04.024][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.026][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.027][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:04.028][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:04.028][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:04.028][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:04.031][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:04.031][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:04.032][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:04.032][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:04.032][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.033][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.034][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.036][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.042][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:04.043][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:04.043][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:04.043][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:04.061][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:04.062][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:04.063][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:04.063][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:04.064][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.067][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.085][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.086][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.087][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:04.088][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:04.089][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:04.089][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:04.091][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:04.092][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:04.092][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:04.092][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:04.092][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.102][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.104][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.106][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.107][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:04.110][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:04.111][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:04.111][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:04.116][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:04.117][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:04.118][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:04.118][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:04.119][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.122][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.128][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:04.129][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:04.129][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:04.130][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:04.132][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:04.132][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:04.132][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:04.133][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:04.133][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.136][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.138][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:04.146][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:04.147][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:04.147][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:04.149][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:04.149][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:04.149][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:04.150][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:04.150][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.151][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.152][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:04.153][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:04.154][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:04.154][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:04.156][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:04.163][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:04.163][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:04.164][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:04.164][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.165][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.166][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:04.171][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:04.174][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:04.187][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:04.193][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:04.194][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:04.195][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:04.196][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:04.200][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.202][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.203][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:04.204][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:04.204][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:04.205][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:04.209][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:04.209][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:04.210][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:04.210][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:04.210][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.211][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.222][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:04.224][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:04.224][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:04.224][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:04.226][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:04.227][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:04.227][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:04.227][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:04.228][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.229][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.230][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:04.231][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:04.231][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:04.233][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:04.236][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:04.236][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:04.236][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:04.236][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:04.237][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.242][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.243][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:04.244][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:04.244][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:04.245][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:04.247][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:04.248][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:04.249][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:04.250][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:04.251][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.254][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.268][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:04.271][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:04.271][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:04.272][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:04.287][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:04.288][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:04.288][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:04.288][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:04.289][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.290][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.291][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:04.292][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:04.292][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:04.293][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:04.295][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:04.295][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:04.295][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:04.296][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:04.296][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.306][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.316][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:04.319][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:04.320][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:04.321][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:04.329][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:04.329][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:04.330][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:04.330][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:04.330][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.332][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.333][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:04.334][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:04.334][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:04.334][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:04.336][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:04.340][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:04.341][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:04.342][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:04.343][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.347][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.350][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:04.363][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:04.363][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:04.363][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:04.366][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:04.366][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:04.366][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:04.366][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:04.367][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.371][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.376][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:04.379][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:04.380][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:04.381][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:04.399][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:04.402][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:04.403][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:04.403][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:04.403][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.405][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.406][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:04.407][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:04.407][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:04.407][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:04.414][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:04.415][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:04.416][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:04.416][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:04.418][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.427][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.428][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.435][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:04.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:04.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.437][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:04.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:04.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.438][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:04.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:04.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.447][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:04.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:04.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.448][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:04.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:04.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-11-12 18:07:04.473][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-12 18:07:04.483][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-12 18:07:04.485][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/63dc67d905e130c19900bd338bad7ba9.content.
sched.DEBUG[2025-11-12 18:07:04.485][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-11-12 18:07:04.487][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39125*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-12 18:07:04.488][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-12 18:07:04.489][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/287cac4c6e727656d926f26e3952924c.content.
sched.DEBUG[2025-11-12 18:07:04.489][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-12 18:07:04.490][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:04.491][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:04.491][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:04.494][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:04.494][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:04.494][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:04.495][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:04.495][private$loadEntries] Creating entries from ids [1]: "4648".
biodb.DEBUG[2025-11-12 18:07:04.495][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-12 18:07:04.496][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-12 18:07:04.498][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4648.xml.
biodb.DEBUG[2025-11-12 18:07:04.498][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-12 18:07:04.499][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-12 18:07:04.499][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-12 18:07:04.500][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:04.500][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:04.501][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:04.503][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:04.503][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:04.503][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:04.504][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:04.505][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:04.505][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:04.505][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.505][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.506][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:04.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:04.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.518][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-12 18:07:04.520][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-12 18:07:04.520][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.521][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.522][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-12 18:07:04.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-12 18:07:04.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.528][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-12 18:07:04.528][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-12 18:07:04.528][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.529][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.532][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-12 18:07:04.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-12 18:07:04.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.534][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-12 18:07:04.534][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-12 18:07:04.534][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.535][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.538][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-12 18:07:04.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-12 18:07:04.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.539][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-12 18:07:04.540][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-12 18:07:04.540][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.540][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.540][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-12 18:07:04.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-12 18:07:04.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.542][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-12 18:07:04.542][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-12 18:07:04.542][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.543][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.543][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-12 18:07:04.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-12 18:07:04.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.544][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-12 18:07:04.544][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.557][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.557][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.558][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-12 18:07:04.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.560][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:04.561][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:04.561][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.561][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.562][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:04.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:04.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.563][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-12 18:07:04.563][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-12 18:07:04.564][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.567][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.567][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-12 18:07:04.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-12 18:07:04.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.569][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-12 18:07:04.569][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-12 18:07:04.570][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.570][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.571][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-12 18:07:04.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-12 18:07:04.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.572][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-12 18:07:04.572][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-12 18:07:04.573][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.573][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.573][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-12 18:07:04.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-12 18:07:04.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.575][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:04.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:04.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.576][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:04.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:04.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.579][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:04.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:04.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.582][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:04.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:04.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.586][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:04.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:04.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.605][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:04.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:04.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.606][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:04.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:04.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.607][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:04.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:04.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.608][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:04.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:04.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.610][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:04.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:04.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:04.611][self$createEntryFromContent] Accession numbers: 4648.
biodb.TRACE[2025-11-12 18:07:04.611][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:04.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:04.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.612][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:04.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:04.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.621][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:04.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:04.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:04.623][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:04.623][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:04.623][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:04.626][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:04.626][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:04.627][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:04.627][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:04.627][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:04.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:04.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.632][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:04.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:04.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.636][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:04.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:04.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:04.638][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:04.638][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:04.639][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:04.641][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:04.641][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:04.642][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:04.642][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.DEBUG[2025-11-12 18:07:04.642][private$loadEntries] Creating entries from ids [1]: "62447".
biodb.DEBUG[2025-11-12 18:07:04.643][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-12 18:07:04.643][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-12 18:07:04.645][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62447.xml.
biodb.DEBUG[2025-11-12 18:07:04.645][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-12 18:07:04.646][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-12 18:07:04.646][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-12 18:07:04.647][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:04.647][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:04.647][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:04.650][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:04.650][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:04.650][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:04.651][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:04.652][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:04.652][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:04.652][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.653][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.653][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:04.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:04.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.663][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-12 18:07:04.664][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-12 18:07:04.665][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.666][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.667][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-12 18:07:04.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-12 18:07:04.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.681][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-12 18:07:04.682][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-12 18:07:04.682][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.682][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.683][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-12 18:07:04.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-12 18:07:04.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.684][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-12 18:07:04.685][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-12 18:07:04.685][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.685][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.686][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-12 18:07:04.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-12 18:07:04.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.687][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-12 18:07:04.688][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-12 18:07:04.688][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.688][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.689][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-12 18:07:04.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-12 18:07:04.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.690][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-12 18:07:04.691][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-12 18:07:04.693][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.694][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.695][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-12 18:07:04.696][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.697][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.698][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.699][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-12 18:07:04.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:04.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.711][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:04.712][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:04.712][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.712][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.713][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:04.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:04.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.714][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-12 18:07:04.714][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-12 18:07:04.715][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.715][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.718][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-12 18:07:04.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-12 18:07:04.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.731][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-12 18:07:04.731][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-12 18:07:04.732][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.732][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.732][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-12 18:07:04.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-12 18:07:04.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.739][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-12 18:07:04.740][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-12 18:07:04.742][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.743][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.746][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-12 18:07:04.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-12 18:07:04.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.752][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:04.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:04.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.754][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:04.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:04.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.763][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:04.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:04.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.766][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:04.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:04.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.777][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:04.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:04.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.778][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:04.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:04.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.779][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:04.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:04.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.781][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:04.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:04.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.782][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:04.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:04.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.783][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:04.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:04.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:04.784][self$createEntryFromContent] Accession numbers: 62447.
biodb.TRACE[2025-11-12 18:07:04.784][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:04.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:04.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.786][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:04.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:04.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.793][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:04.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:04.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-11-12 18:07:04.803][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-12 18:07:04.807][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-12 18:07:04.813][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-11-12 18:07:04.814][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-12 18:07:04.821][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:04.822][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:04.822][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:04.825][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:04.825][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:04.829][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:04.829][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:04.830][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:04.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:04.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.834][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:04.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:04.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.835][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:04.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:04.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:04.836][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:04.837][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:04.837][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:04.839][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:04.840][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:04.840][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:04.840][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:04.841][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:04.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:04.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.842][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:04.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:04.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.858][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:04.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:04.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.859][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:04.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:04.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.860][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:04.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:04.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:04.862][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:04.862][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:04.862][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:04.864][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:04.864][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:04.865][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:04.865][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:04.865][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:04.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:04.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.880][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:04.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:04.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.883][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:04.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:04.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.886][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:04.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:04.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.889][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:04.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:04.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:04.890][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:04.891][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:04.891][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:04.894][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:04.894][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:04.894][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:04.895][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:04.895][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:04.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:04.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.897][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:04.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:04.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.902][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:04.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:04.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.906][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:04.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:04.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.909][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:04.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:04.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:04.921][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:04.921][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:04.922][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:04.925][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:04.925][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:04.925][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:04.926][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:04.928][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:04.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:04.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.933][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:04.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:04.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.934][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:04.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:04.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:04.935][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:04.935][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:04.936][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:04.939][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:04.940][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:04.943][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:04.944][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:04.945][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:04.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:04.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.946][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:04.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:04.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.947][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:04.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:04.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:04.948][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:04.949][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:04.949][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:04.952][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:04.952][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:04.953][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:04.953][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:04.953][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:04.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:04.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.955][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:04.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:04.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.956][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:04.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:04.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:04.957][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:04.957][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:04.958][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:04.960][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:04.963][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:04.965][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:04.966][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:04.967][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:04.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:04.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.970][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:04.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:04.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.973][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:04.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:04.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:04.989][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:04.989][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:04.989][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:04.992][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:04.993][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:04.993][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:04.993][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:04.994][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:04.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:04.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:04.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:04.995][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.014][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:05.021][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:05.021][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:05.021][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:05.024][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:05.024][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:05.024][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:05.025][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:05.025][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.026][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.027][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:05.029][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:05.033][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:05.033][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:05.036][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:05.036][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:05.036][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:05.036][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:05.037][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.038][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.039][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:05.040][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:05.041][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:05.041][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:05.043][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:05.043][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:05.043][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:05.043][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:05.045][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.048][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.049][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:05.050][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:05.050][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:05.050][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:05.053][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:05.053][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:05.053][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:05.054][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:05.054][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.055][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.056][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:05.057][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:05.058][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:05.058][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:05.060][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:05.060][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:05.061][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:05.061][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:05.061][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.070][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.084][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:05.086][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:05.086][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:05.087][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:05.089][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:05.090][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:05.090][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:05.090][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:05.091][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.092][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.096][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:05.098][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:05.098][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:05.098][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:05.103][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:05.104][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:05.105][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:05.106][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:05.107][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.108][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.110][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:05.111][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:05.111][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:05.111][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:05.114][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:05.114][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:05.115][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:05.115][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:05.115][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.117][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.118][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:05.119][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:05.119][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:05.120][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:05.122][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:05.122][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:05.122][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:05.122][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:05.123][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.124][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.125][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:05.126][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:05.127][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:05.127][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:05.132][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:05.133][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:05.133][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:05.133][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:05.134][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.135][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.136][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:05.137][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:05.138][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:05.138][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:05.140][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:05.140][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:05.140][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:05.141][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:05.141][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.142][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.143][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-11-12 18:07:05.151][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-12 18:07:05.152][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-12 18:07:05.153][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-11-12 18:07:05.154][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-12 18:07:05.155][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:05.155][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:05.155][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:05.157][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:05.157][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:05.158][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:05.158][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:05.158][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.160][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.161][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:05.162][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:05.162][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:05.162][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:05.164][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:05.165][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:05.165][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:05.165][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:05.166][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.167][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.169][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.173][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.175][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:05.176][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:05.177][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:05.177][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:05.179][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:05.179][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:05.180][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:05.180][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:05.180][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.182][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.183][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.184][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.185][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:05.187][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:05.187][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:05.187][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:05.189][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:05.190][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:05.190][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:05.190][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:05.190][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.192][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.193][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.194][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.195][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:05.196][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:05.196][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:05.197][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:05.198][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:05.199][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:05.199][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:05.199][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:05.200][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.201][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.202][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:05.203][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:05.203][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:05.203][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:05.205][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:05.205][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:05.205][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:05.206][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:05.206][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.210][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.212][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:05.213][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:05.213][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:05.213][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:05.215][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:05.216][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:05.216][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:05.216][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:05.216][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.218][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.219][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:05.220][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:05.221][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:05.221][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:05.223][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:05.223][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:05.223][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:05.224][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:05.224][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.225][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.226][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:05.227][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:05.227][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:05.228][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:05.229][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:05.230][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:05.230][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:05.230][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:05.231][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.232][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.233][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:05.234][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:05.234][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:05.234][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:05.236][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:05.237][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:05.237][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:05.237][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:05.237][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.239][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.240][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:05.241][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:05.242][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:05.242][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:05.244][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:05.327][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:05.328][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:05.328][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:05.329][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.330][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.331][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:05.333][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:05.333][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:05.333][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:05.335][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:05.336][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:05.336][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:05.336][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:05.337][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.346][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.347][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:05.348][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:05.349][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:05.349][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:05.351][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:05.351][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:05.351][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:05.352][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:05.352][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.353][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.354][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:05.356][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:05.356][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:05.356][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:05.358][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:05.358][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:05.358][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:05.359][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:05.359][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.360][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.361][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:05.362][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:05.362][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:05.363][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:05.364][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:05.365][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:05.365][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:05.365][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:05.366][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.367][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.368][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:05.369][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:05.369][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:05.369][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:05.371][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:05.371][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:05.371][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:05.371][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:05.372][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.373][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.374][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:05.375][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:05.375][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:05.376][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:05.378][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:05.378][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:05.378][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:05.378][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:05.379][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.380][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.381][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:05.382][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:05.383][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:05.383][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:05.385][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:05.385][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:05.386][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:05.386][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:05.386][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.387][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.389][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:05.390][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:05.390][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:05.390][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:05.392][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:05.393][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:05.393][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:05.393][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:05.394][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.395][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.396][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:05.398][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:05.398][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:05.398][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:05.401][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:05.401][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:05.402][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:05.402][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:05.402][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.404][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.405][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.413][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-11-12 18:07:05.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-11-12 18:07:05.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-11-12 18:07:05.418][biodb::testThat]
biodb.INFO [2025-11-12 18:07:05.419][biodb::testThat] Running test function  test_annotateMzValues_input_vector  (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2025-11-12 18:07:05.419][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-12 18:07:05.419][biodb::testThat]
biodb.TRACE[2025-11-12 18:07:05.421][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-11-12 18:07:05.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-11-12 18:07:05.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.422][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:05.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:05.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.424][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:05.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:05.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.425][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:05.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:05.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.426][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:05.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:05.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:05.429][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:05.429][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:05.430][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:05.432][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:05.432][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:05.432][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:05.433][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-11-12 18:07:05.434][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-12 18:07:05.435][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-12 18:07:05.436][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-11-12 18:07:05.436][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-12 18:07:05.437][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:05.437][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:05.438][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:05.440][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:05.440][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:05.440][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:05.440][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:05.441][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:05.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:05.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.442][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:05.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:05.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.443][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:05.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:05.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-11-12 18:07:05.445][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-12 18:07:05.446][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-12 18:07:05.447][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-11-12 18:07:05.447][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-12 18:07:05.448][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:05.448][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:05.448][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:05.450][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:05.451][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:05.451][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:05.451][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:05.452][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:05.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:05.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.456][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:05.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:05.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.457][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:05.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:05.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:05.459][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:05.459][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:05.459][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:05.461][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:05.461][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:05.461][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:05.462][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:05.462][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:05.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:05.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.463][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:05.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:05.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.464][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:05.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:05.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:05.465][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-11-12 18:07:05.466][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:05.466][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:05.466][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:05.468][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:05.468][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:05.469][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:05.469][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:05.469][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.470][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.472][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-12 18:07:05.472][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-12 18:07:05.472][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-12 18:07:05.472][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-12 18:07:05.473][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-12 18:07:05.473][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.473][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.473][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.474][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.474][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.474][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.474][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.475][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.475][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-12 18:07:05.475][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-12 18:07:05.475][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.476][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.476][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.476][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.476][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-12 18:07:05.477][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.478][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.479][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.484][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-11-12 18:07:05.485][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:05.485][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:05.486][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:05.488][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:05.494][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:05.494][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:05.495][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:05.495][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.497][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.498][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-12 18:07:05.499][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-12 18:07:05.499][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-12 18:07:05.499][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-12 18:07:05.500][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-12 18:07:05.500][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.501][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.501][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.501][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.501][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.502][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.502][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.502][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.503][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-12 18:07:05.503][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-12 18:07:05.503][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.504][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.504][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.504][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.505][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-12 18:07:05.505][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.506][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.508][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.509][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-11-12 18:07:05.509][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:05.510][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:05.510][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:05.512][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:05.513][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:05.513][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:05.513][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:05.514][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.515][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.516][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-12 18:07:05.516][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-12 18:07:05.516][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-12 18:07:05.517][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-12 18:07:05.517][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-12 18:07:05.517][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.518][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.518][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.518][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.519][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.519][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.519][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.519][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.520][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-12 18:07:05.520][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-12 18:07:05.520][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.521][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.521][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.521][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.522][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-12 18:07:05.522][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.523][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.524][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.526][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-11-12 18:07:05.526][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-11-12 18:07:05.526][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-11-12 18:07:05.530][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.532][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.533][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.535][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:05.555][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:05.556][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:05.556][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:05.558][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:05.559][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:05.559][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:05.559][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-11-12 18:07:05.560][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-12 18:07:05.562][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-12 18:07:05.563][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-11-12 18:07:05.563][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-11-12 18:07:05.565][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-12 18:07:05.566][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-12 18:07:05.567][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-11-12 18:07:05.568][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-12 18:07:05.569][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:05.569][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:05.570][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:05.575][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:05.576][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:05.576][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:05.576][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:05.577][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.578][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.579][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:05.580][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:05.581][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:05.581][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:05.583][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:05.584][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:05.584][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:05.584][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:05.584][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.586][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.587][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:05.588][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:05.588][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:05.589][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:05.591][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:05.591][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:05.591][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:05.592][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:05.592][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.593][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.594][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:05.604][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-11-12 18:07:05.612][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:05.612][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:05.613][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:05.615][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:05.615][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:05.616][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:05.616][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:05.616][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.617][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.619][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-12 18:07:05.619][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-12 18:07:05.619][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-12 18:07:05.619][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-12 18:07:05.620][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-12 18:07:05.620][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.620][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.620][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.621][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.621][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.621][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.621][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.622][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.622][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-12 18:07:05.622][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-12 18:07:05.623][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.623][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.623][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.624][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.624][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-12 18:07:05.624][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.625][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.628][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.630][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-11-12 18:07:05.630][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:05.630][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:05.630][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:05.634][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:05.635][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:05.635][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:05.635][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:05.640][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.641][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.648][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-12 18:07:05.649][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-12 18:07:05.649][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-12 18:07:05.649][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-12 18:07:05.650][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-12 18:07:05.650][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.651][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.651][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.651][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.651][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.652][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.652][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.652][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.652][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-12 18:07:05.656][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-12 18:07:05.656][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.656][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.657][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.657][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.657][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-12 18:07:05.657][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.659][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.660][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.661][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-11-12 18:07:05.661][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:05.661][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:05.662][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:05.663][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:05.664][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:05.664][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:05.664][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:05.665][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.666][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.667][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-12 18:07:05.667][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-12 18:07:05.667][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-12 18:07:05.668][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-12 18:07:05.668][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-12 18:07:05.668][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.668][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.669][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.669][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.669][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.670][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.670][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.670][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.670][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-12 18:07:05.671][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-12 18:07:05.671][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.671][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.671][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.672][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.672][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-12 18:07:05.672][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.673][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.677][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.678][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-11-12 18:07:05.678][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-11-12 18:07:05.679][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-11-12 18:07:05.682][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-11-12 18:07:05.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-11-12 18:07:05.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-11-12 18:07:05.685][biodb::testThat]
biodb.INFO [2025-11-12 18:07:05.685][biodb::testThat] Running test function  test_annotateMzValues_ppm_tol  (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2025-11-12 18:07:05.686][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-12 18:07:05.686][biodb::testThat]
biodb.TRACE[2025-11-12 18:07:05.687][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-11-12 18:07:05.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-11-12 18:07:05.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.688][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:05.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:05.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.689][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:05.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:05.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.693][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:05.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:05.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.694][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:05.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:05.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:05.696][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:05.696][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:05.696][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:05.698][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:05.698][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:05.699][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:05.699][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-11-12 18:07:05.700][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-12 18:07:05.701][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-12 18:07:05.701][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-11-12 18:07:05.702][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-12 18:07:05.702][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:05.703][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:05.703][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:05.705][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:05.705][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:05.705][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:05.706][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:05.706][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:05.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:05.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.707][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:05.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:05.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.708][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:05.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:05.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-11-12 18:07:05.709][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-12 18:07:05.710][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-12 18:07:05.711][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-11-12 18:07:05.711][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-12 18:07:05.712][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:05.712][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:05.712][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:05.714][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:05.714][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:05.715][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:05.715][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:05.715][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:05.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:05.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.716][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:05.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:05.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.718][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:05.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:05.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:05.719][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:05.719][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:05.719][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:05.721][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:05.722][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:05.722][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:05.722][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:05.723][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:05.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:05.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.724][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:05.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:05.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.725][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:05.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:05.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:05.726][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-11-12 18:07:05.727][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:05.727][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:05.728][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:05.738][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:05.738][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:05.739][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:05.739][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:05.740][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.741][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.742][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-12 18:07:05.743][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-12 18:07:05.743][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-12 18:07:05.743][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-12 18:07:05.744][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-12 18:07:05.744][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.744][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.745][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.745][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.745][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.746][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.746][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.746][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.747][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-12 18:07:05.747][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-12 18:07:05.747][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.748][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.748][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.748][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.749][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-12 18:07:05.749][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.750][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.755][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.757][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-11-12 18:07:05.757][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:05.758][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:05.758][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:05.763][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:05.763][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:05.764][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:05.764][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:05.764][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.765][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.767][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-12 18:07:05.767][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-12 18:07:05.767][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-12 18:07:05.768][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-12 18:07:05.768][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-12 18:07:05.768][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.769][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.769][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.769][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.769][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.770][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.770][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.770][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.770][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-12 18:07:05.771][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-12 18:07:05.771][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.771][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.772][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.772][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.774][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-12 18:07:05.775][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.776][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.777][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.779][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-11-12 18:07:05.779][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:05.779][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:05.780][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:05.782][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:05.782][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:05.782][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:05.782][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:05.783][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.784][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.785][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-12 18:07:05.786][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-12 18:07:05.786][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-12 18:07:05.786][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-12 18:07:05.786][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-12 18:07:05.787][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.787][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.787][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.788][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.788][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.788][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.788][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.789][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.789][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-12 18:07:05.789][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-12 18:07:05.790][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.790][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.790][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.790][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.791][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-12 18:07:05.791][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.792][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.793][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.795][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-11-12 18:07:05.795][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-11-12 18:07:05.795][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-11-12 18:07:05.799][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.800][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.801][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.803][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:05.807][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:05.808][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:05.808][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:05.810][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:05.810][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:05.810][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:05.810][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-11-12 18:07:05.811][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-12 18:07:05.812][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-12 18:07:05.813][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-11-12 18:07:05.813][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-11-12 18:07:05.814][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-12 18:07:05.815][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-12 18:07:05.816][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-11-12 18:07:05.816][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-12 18:07:05.818][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:05.818][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:05.818][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:05.820][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:05.821][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:05.821][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:05.821][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:05.822][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.823][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.824][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:05.825][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:05.825][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:05.826][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:05.828][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:05.829][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:05.829][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:05.829][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:05.830][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.831][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.833][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:05.834][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:05.835][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:05.835][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:05.837][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:05.838][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:05.838][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:05.838][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:05.839][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.840][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.842][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:05.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:05.843][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-11-12 18:07:05.844][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:05.844][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:05.844][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:05.847][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:05.847][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:05.847][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:05.848][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:05.848][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.850][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.851][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-12 18:07:05.852][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-12 18:07:05.852][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-12 18:07:05.853][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-12 18:07:05.853][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-12 18:07:05.853][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.854][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.854][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.854][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.854][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.855][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.855][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.855][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.856][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-12 18:07:05.856][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-12 18:07:05.856][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.857][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.857][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.857][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.857][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-12 18:07:05.858][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.859][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.860][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.861][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-11-12 18:07:05.862][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:05.863][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:05.863][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:05.865][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:05.866][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:05.866][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:05.866][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:05.867][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.868][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.870][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-12 18:07:05.870][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-12 18:07:05.870][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-12 18:07:05.871][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-12 18:07:05.871][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-12 18:07:05.871][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.871][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.872][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.872][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.872][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.873][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.873][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.873][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.874][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-12 18:07:05.874][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-12 18:07:05.874][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.875][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.875][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.875][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.875][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-12 18:07:05.876][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.877][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.878][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.879][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-11-12 18:07:05.880][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:05.880][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:05.880][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:05.883][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:05.883][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:05.883][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:05.884][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:05.884][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.885][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.886][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-12 18:07:05.887][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-12 18:07:05.887][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-12 18:07:05.887][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-12 18:07:05.887][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-12 18:07:05.888][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.888][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.888][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.889][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.889][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.889][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.889][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.890][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.890][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-12 18:07:05.890][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-12 18:07:05.891][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.891][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.891][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.892][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.892][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-12 18:07:05.892][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.893][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.894][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.896][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-11-12 18:07:05.897][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-11-12 18:07:05.897][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-11-12 18:07:05.901][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-11-12 18:07:05.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-11-12 18:07:05.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-11-12 18:07:05.904][biodb::testThat]
biodb.INFO [2025-11-12 18:07:05.904][biodb::testThat] Running test function  test_annotateMzValues_input_dataframe_untouched  (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2025-11-12 18:07:05.904][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-12 18:07:05.905][biodb::testThat]
biodb.TRACE[2025-11-12 18:07:05.906][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-11-12 18:07:05.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-11-12 18:07:05.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.907][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:05.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:05.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.909][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:05.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:05.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.910][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:05.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:05.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.911][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:05.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:05.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:05.915][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:05.915][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:05.915][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:05.917][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:05.918][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:05.918][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:05.918][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-11-12 18:07:05.920][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-12 18:07:05.921][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-12 18:07:05.921][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-11-12 18:07:05.922][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-12 18:07:05.923][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:05.923][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:05.923][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:05.925][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:05.926][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:05.929][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:05.929][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:05.930][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:05.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:05.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.931][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:05.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:05.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.932][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:05.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:05.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-11-12 18:07:05.934][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-12 18:07:05.935][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-12 18:07:05.935][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-11-12 18:07:05.936][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-12 18:07:05.936][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:05.937][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:05.937][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:05.940][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:05.940][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:05.941][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:05.941][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:05.941][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:05.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:05.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.942][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:05.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:05.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.943][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:05.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:05.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:05.945][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:05.945][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:05.945][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:05.947][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:05.947][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:05.947][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:05.948][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:05.948][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:05.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:05.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.949][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:05.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:05.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.950][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:05.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:05.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:05.951][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-11-12 18:07:05.952][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:05.952][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:05.952][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:05.954][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:05.954][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:05.954][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:05.955][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:05.955][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.956][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.957][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-12 18:07:05.958][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-12 18:07:05.958][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-12 18:07:05.958][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-12 18:07:05.958][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-12 18:07:05.959][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.959][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.959][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.959][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.960][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.960][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.960][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.960][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.961][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-12 18:07:05.961][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-12 18:07:05.961][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.961][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.962][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.962][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.962][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-12 18:07:05.962][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.963][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.965][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.966][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-11-12 18:07:05.966][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:05.966][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:05.967][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:05.968][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:05.969][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:05.969][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:05.969][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:05.970][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.971][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.972][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-12 18:07:05.972][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-12 18:07:05.972][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-12 18:07:05.972][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-12 18:07:05.973][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-12 18:07:05.973][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.973][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.974][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.974][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.974][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.974][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.975][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.975][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.975][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-12 18:07:05.975][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-12 18:07:05.976][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.976][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.976][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.976][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.977][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-12 18:07:05.977][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.978][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.979][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.980][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-11-12 18:07:05.981][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:05.981][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:05.981][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:05.983][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:05.983][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:05.984][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:05.984][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:05.984][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.985][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.986][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-12 18:07:05.987][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-12 18:07:05.987][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-12 18:07:05.987][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-12 18:07:05.987][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-12 18:07:05.988][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.988][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.988][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.989][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.989][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.989][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.989][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.990][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.990][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-12 18:07:05.990][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-12 18:07:05.990][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.991][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.991][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.991][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.992][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-12 18:07:05.992][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.993][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.995][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:05.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:05.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:05.996][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-11-12 18:07:05.997][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-11-12 18:07:05.997][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-11-12 18:07:06.007][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:06.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:06.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.008][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:06.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:06.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.009][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:06.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:06.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.010][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:06.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:06.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:06.013][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:06.013][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:06.014][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:06.016][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.016][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.016][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.016][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-11-12 18:07:06.017][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-12 18:07:06.018][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-12 18:07:06.019][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-11-12 18:07:06.019][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-11-12 18:07:06.020][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-12 18:07:06.021][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-12 18:07:06.022][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-11-12 18:07:06.022][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-12 18:07:06.023][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:06.023][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:06.023][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:06.025][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.025][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.025][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.026][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:06.026][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:06.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:06.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.027][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:06.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:06.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.028][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:06.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:06.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:06.029][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:06.030][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:06.030][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:06.031][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.032][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.032][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.032][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:06.033][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:06.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:06.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.038][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:06.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:06.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.039][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:06.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:06.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:06.040][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:06.040][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:06.040][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:06.042][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.042][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.043][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.043][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:06.043][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:06.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:06.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.044][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:06.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:06.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.046][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:06.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:06.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:06.047][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-11-12 18:07:06.047][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:06.047][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:06.048][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:06.049][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.050][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.050][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.050][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:06.051][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:06.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:06.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.052][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:06.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:06.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.053][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-12 18:07:06.053][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-12 18:07:06.053][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-12 18:07:06.054][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-12 18:07:06.054][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-12 18:07:06.054][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:06.054][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:06.055][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.055][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.055][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:06.056][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:06.057][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.057][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.057][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-12 18:07:06.057][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-12 18:07:06.058][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:06.058][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:06.058][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.058][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.059][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-12 18:07:06.059][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:06.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:06.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.060][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:06.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:06.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.061][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:06.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:06.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.062][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-11-12 18:07:06.063][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:06.063][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:06.063][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:06.065][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.065][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.066][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.066][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:06.067][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:06.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:06.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.068][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:06.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:06.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.069][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-12 18:07:06.069][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-12 18:07:06.069][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-12 18:07:06.070][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-12 18:07:06.070][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-12 18:07:06.070][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:06.071][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:06.071][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.071][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.071][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:06.072][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:06.072][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.072][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.072][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-12 18:07:06.073][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-12 18:07:06.073][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:06.073][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:06.074][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.074][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.074][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-12 18:07:06.074][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:06.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:06.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.076][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:06.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:06.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.077][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:06.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:06.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.079][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-11-12 18:07:06.079][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:06.079][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:06.079][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:06.081][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.082][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.082][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.082][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:06.083][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:06.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:06.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.084][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:06.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:06.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.085][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-12 18:07:06.085][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-12 18:07:06.085][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-12 18:07:06.086][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-12 18:07:06.086][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-12 18:07:06.086][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:06.086][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:06.087][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.087][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.087][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:06.087][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:06.088][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.088][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.088][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-12 18:07:06.088][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-12 18:07:06.089][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:06.089][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:06.089][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.089][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.090][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-12 18:07:06.090][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:06.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:06.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.091][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:06.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:06.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.093][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:06.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:06.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.094][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-11-12 18:07:06.095][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-11-12 18:07:06.095][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-11-12 18:07:06.103][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-11-12 18:07:06.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-11-12 18:07:06.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-11-12 18:07:06.106][biodb::testThat]
biodb.INFO [2025-11-12 18:07:06.106][biodb::testThat] Running test function  test.wrong.entry  (" Wrong entry gives NULL ").
biodb.INFO [2025-11-12 18:07:06.107][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-12 18:07:06.107][biodb::testThat]
biodb.DEBUG[2025-11-12 18:07:06.107][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2025-11-12 18:07:06.108][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-12 18:07:06.108][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-12 18:07:06.109][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGA.xml.
biodb.DEBUG[2025-11-12 18:07:06.110][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-12 18:07:06.110][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-12 18:07:06.110][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-12 18:07:06.111][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:06.111][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:06.111][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:06.113][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.113][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.114][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.114][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:06.115][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:06.115][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:06.115][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.116][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.116][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:06.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:06.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.117][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-12 18:07:06.118][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-12 18:07:06.118][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.118][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.118][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-12 18:07:06.119][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-12 18:07:06.119][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.119][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.120][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-12 18:07:06.120][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-12 18:07:06.120][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.120][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.121][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-12 18:07:06.121][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-12 18:07:06.121][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.122][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.122][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-12 18:07:06.122][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-12 18:07:06.122][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.123][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.123][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-12 18:07:06.123][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:06.124][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.124][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.124][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:06.124][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:06.125][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.125][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.125][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-12 18:07:06.126][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-12 18:07:06.126][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.126][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.126][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-12 18:07:06.127][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-12 18:07:06.127][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.127][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.128][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-12 18:07:06.128][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-12 18:07:06.128][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.128][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.129][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:06.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:06.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.130][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:06.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:06.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.131][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:06.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:06.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.132][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:06.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:06.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.133][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:06.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:06.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.134][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:06.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:06.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.135][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:06.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:06.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.136][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:06.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:06.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.137][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:06.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:06.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.141][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:06.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:06.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:06.142][self$createEntryFromContent] Accession numbers: .
biodb.DEBUG[2025-11-12 18:07:06.143][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2025-11-12 18:07:06.146][biodb::testThat]
biodb.INFO [2025-11-12 18:07:06.146][biodb::testThat] Running test function  test.wrong.entry.among.good.ones  (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2025-11-12 18:07:06.147][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-12 18:07:06.147][biodb::testThat]
biodb.DEBUG[2025-11-12 18:07:06.150][function(conn, opt)] IDS: [4]: "WRONGB, 15440, 2528, 7799"
biodb.DEBUG[2025-11-12 18:07:06.151][private$loadEntries] Creating entries from ids [3]: "WRONGB, 2528, 7799".
biodb.DEBUG[2025-11-12 18:07:06.151][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
fscache.INFO [2025-11-12 18:07:06.152][cch$loadContents] Load 3 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-12 18:07:06.152][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGB.xml.
fscache.DEBUG[2025-11-12 18:07:06.154][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2528.xml.
fscache.DEBUG[2025-11-12 18:07:06.155][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7799.xml.
biodb.DEBUG[2025-11-12 18:07:06.155][conn$getEntryContent] 3 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-12 18:07:06.156][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2025-11-12 18:07:06.156][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2025-11-12 18:07:06.157][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:06.157][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:06.157][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:06.160][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.160][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.160][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.161][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:06.162][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:06.162][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:06.162][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.163][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.163][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:06.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:06.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.165][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-12 18:07:06.165][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-12 18:07:06.165][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.166][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.166][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-12 18:07:06.166][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-12 18:07:06.167][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.167][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.167][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-12 18:07:06.168][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-12 18:07:06.168][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.169][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.169][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-12 18:07:06.169][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-12 18:07:06.170][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.170][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.170][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-12 18:07:06.171][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-12 18:07:06.171][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.171][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.172][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-12 18:07:06.172][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:06.172][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.173][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.173][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:06.173][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:06.174][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.174][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.174][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-12 18:07:06.175][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-12 18:07:06.175][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.175][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.176][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-12 18:07:06.176][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-12 18:07:06.176][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.176][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.177][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-12 18:07:06.177][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-12 18:07:06.177][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.178][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.178][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:06.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:06.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.179][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:06.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:06.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.181][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:06.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:06.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.182][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:06.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:06.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.183][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:06.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:06.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.184][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:06.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:06.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.186][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:06.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:06.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:06.187][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:06.187][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:06.187][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:06.189][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.190][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.190][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.190][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:06.191][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:06.191][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:06.191][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.192][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.192][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:06.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:06.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.193][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-12 18:07:06.193][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-12 18:07:06.194][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.194][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.194][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-12 18:07:06.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-12 18:07:06.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.195][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-12 18:07:06.196][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-12 18:07:06.196][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.196][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.197][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-12 18:07:06.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-12 18:07:06.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.198][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-12 18:07:06.198][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-12 18:07:06.198][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.199][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.199][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-12 18:07:06.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-12 18:07:06.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.200][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-12 18:07:06.200][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-12 18:07:06.201][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.201][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.201][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-12 18:07:06.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-12 18:07:06.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.202][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-12 18:07:06.203][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-12 18:07:06.203][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.203][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.203][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-12 18:07:06.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-12 18:07:06.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.204][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-12 18:07:06.205][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:06.205][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.205][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.206][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-12 18:07:06.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:06.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.207][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:06.207][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:06.207][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.207][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.208][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:06.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:06.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.209][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-12 18:07:06.209][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-12 18:07:06.209][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.210][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.210][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-12 18:07:06.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-12 18:07:06.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.211][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-12 18:07:06.211][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-12 18:07:06.212][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.212][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.212][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-12 18:07:06.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-12 18:07:06.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.213][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-12 18:07:06.214][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-12 18:07:06.214][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.214][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.215][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-12 18:07:06.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-12 18:07:06.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.216][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:06.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:06.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.217][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:06.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:06.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.218][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:06.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:06.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.219][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:06.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:06.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.220][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:06.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:06.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.221][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:06.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:06.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.222][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:06.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:06.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:06.223][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:06.224][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:06.224][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:06.226][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.226][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.226][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.227][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-12 18:07:06.227][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:06.228][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:06.228][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.228][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.229][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:06.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:06.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.230][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-12 18:07:06.230][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-12 18:07:06.230][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.231][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.231][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-12 18:07:06.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-12 18:07:06.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.232][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-12 18:07:06.232][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-12 18:07:06.233][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.233][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.233][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-12 18:07:06.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-12 18:07:06.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.234][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-12 18:07:06.235][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-12 18:07:06.235][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.235][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.236][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-12 18:07:06.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-12 18:07:06.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.237][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-12 18:07:06.237][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-12 18:07:06.237][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.237][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.238][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-12 18:07:06.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-12 18:07:06.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.239][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-12 18:07:06.239][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-12 18:07:06.239][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.240][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.240][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-12 18:07:06.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-12 18:07:06.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.241][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-12 18:07:06.242][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:06.242][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.246][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.246][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-12 18:07:06.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:06.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.248][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:06.248][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:06.248][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.249][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.249][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:06.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:06.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.250][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-12 18:07:06.251][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-12 18:07:06.251][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.251][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.252][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-12 18:07:06.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-12 18:07:06.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.253][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-12 18:07:06.254][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-12 18:07:06.254][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.254][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.255][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-12 18:07:06.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-12 18:07:06.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.256][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-12 18:07:06.256][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-12 18:07:06.257][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.257][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.257][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-12 18:07:06.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-12 18:07:06.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.258][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:06.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:06.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.260][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:06.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:06.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.261][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:06.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:06.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.262][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:06.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:06.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.263][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:06.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:06.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.265][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:06.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:06.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.266][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:06.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:06.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.267][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:06.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:06.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.269][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:06.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:06.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.270][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:06.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:06.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.272][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:06.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:06.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.273][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:06.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:06.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.274][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:06.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:06.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.275][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:06.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:06.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.276][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:06.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:06.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.278][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:06.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:06.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:06.279][self$createEntryFromContent] Accession numbers: , 2528, 7799.
biodb.DEBUG[2025-11-12 18:07:06.279][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2025-11-12 18:07:06.279][function(conn, opt)] Entries: [4]: "NULL, <environment>, <environment>, <environment>"
biodb.INFO [2025-11-12 18:07:06.287][biodb::testThat]
biodb.INFO [2025-11-12 18:07:06.288][biodb::testThat] Running test function  test.peak.table  (" The peak table is correct. ").
biodb.INFO [2025-11-12 18:07:06.288][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-12 18:07:06.289][biodb::testThat]
biodb.INFO [2025-11-12 18:07:06.297][biodb::testThat]
biodb.INFO [2025-11-12 18:07:06.297][biodb::testThat] Running test function  test.nb.entries  (" Nb entries is positive. ").
biodb.INFO [2025-11-12 18:07:06.297][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-12 18:07:06.298][biodb::testThat]
biodb.INFO [2025-11-12 18:07:06.300][biodb::testThat]
biodb.INFO [2025-11-12 18:07:06.301][biodb::testThat] Running test function  test.entry.ids  (" We can get a list of entry ids. ").
biodb.INFO [2025-11-12 18:07:06.301][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-12 18:07:06.301][biodb::testThat]
sched.DEBUG[2025-11-12 18:07:06.302][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=1*&searchCategory=CHEBI ID&maximumResults=100&starsCategory=ALL".
fscache.INFO [2025-11-12 18:07:06.303][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-12 18:07:06.305][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/02ece1564def26723013d564c4071584.content.
sched.DEBUG[2025-11-12 18:07:06.306][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.TRACE[2025-11-12 18:07:06.311][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-12 18:07:06.311][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-12 18:07:06.311][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.312][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:06.312][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:06.312][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:06.313][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:06.313][ef$get] fields variable is a list.
biodb.INFO [2025-11-12 18:07:06.313][biodb::testThat]
biodb.INFO [2025-11-12 18:07:06.315][biodb::testThat] Running test function  test.annotateMzValues  (" annotateMzValues() works correctly. ").
biodb.INFO [2025-11-12 18:07:06.315][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-12 18:07:06.316][biodb::testThat]
biodb.ERROR[2025-11-12 18:07:06.321][conn$annotateMzValues] No column named "mz" was found inside data frame.
biodb.ERROR[2025-11-12 18:07:06.327][ef$checkIsDefined] Field(s) "foo" is/are not defined.
biodb.INFO [2025-11-12 18:07:06.332][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-11-12 18:07:06.333][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-11-12 18:07:06.333][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-11-12 18:07:06.334][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:06.334][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:06.334][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.334][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.335][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.335][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-11-12 18:07:06.338][biodb::testContext]
biodb.INFO [2025-11-12 18:07:06.339][biodb::testContext] ********************************************************************************
biodb.INFO [2025-11-12 18:07:06.339][biodb::testContext] Test context - Test conversions
biodb.INFO [2025-11-12 18:07:06.339][biodb::testContext] ********************************************************************************
biodb.INFO [2025-11-12 18:07:06.339][biodb::testContext]
biodb.INFO [2025-11-12 18:07:06.340][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.19.0.
biodb.DEBUG[2025-11-12 18:07:06.341][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.6-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-11-12 18:07:06.342][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-12 18:07:06.343][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-11-12 18:07:06.343][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-11-12 18:07:06.343][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.344][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.344][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.344][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-11-12 18:07:06.352][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-11-12 18:07:06.353][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.353][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.353][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.354][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-11-12 18:07:06.354][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-11-12 18:07:06.354][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.355][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.355][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.355][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-11-12 18:07:06.355][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-11-12 18:07:06.356][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-11-12 18:07:06.356][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.356][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.357][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.357][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-11-12 18:07:06.357][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-11-12 18:07:06.358][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-11-12 18:07:06.358][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.358][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.358][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[2025-11-12 18:07:06.359][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-11-12 18:07:06.359][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-11-12 18:07:06.359][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.360][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.360][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.360][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-11-12 18:07:06.360][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-11-12 18:07:06.361][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-11-12 18:07:06.361][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.361][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.362][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[2025-11-12 18:07:06.362][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-11-12 18:07:06.364][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-11-12 18:07:06.365][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.365][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.365][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.366][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-11-12 18:07:06.366][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-11-12 18:07:06.366][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-11-12 18:07:06.367][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.367][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.367][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[2025-11-12 18:07:06.368][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-11-12 18:07:06.368][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-11-12 18:07:06.368][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-11-12 18:07:06.369][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-11-12 18:07:06.369][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-11-12 18:07:06.369][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-11-12 18:07:06.369][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.370][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.370][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.370][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-11-12 18:07:06.371][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-11-12 18:07:06.372][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.372][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.372][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[2025-11-12 18:07:06.373][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-11-12 18:07:06.373][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-11-12 18:07:06.378][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.378][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.378][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.379][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-11-12 18:07:06.379][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-11-12 18:07:06.379][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.380][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.380][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[2025-11-12 18:07:06.380][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-11-12 18:07:06.380][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-11-12 18:07:06.381][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-11-12 18:07:06.382][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.382][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.382][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.383][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-11-12 18:07:06.383][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-11-12 18:07:06.390][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-11-12 18:07:06.391][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.391][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.391][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[2025-11-12 18:07:06.391][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-11-12 18:07:06.392][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-11-12 18:07:06.392][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-11-12 18:07:06.392][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.392][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.393][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.393][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-11-12 18:07:06.394][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-12 18:07:06.394][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-11-12 18:07:06.394][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-12 18:07:06.394][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-12 18:07:06.395][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-12 18:07:06.395][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-12 18:07:06.395][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-12 18:07:06.396][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-12 18:07:06.396][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-11-12 18:07:06.396][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-12 18:07:06.396][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-12 18:07:06.397][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-11-12 18:07:06.397][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-12 18:07:06.397][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-12 18:07:06.397][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-12 18:07:06.398][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-12 18:07:06.398][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-12 18:07:06.398][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-12 18:07:06.398][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-11-12 18:07:06.398][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-11-12 18:07:06.398][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-12 18:07:06.398][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-12 18:07:06.398][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-12 18:07:06.399][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-12 18:07:06.399][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-12 18:07:06.399][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-12 18:07:06.399][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-12 18:07:06.400][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-12 18:07:06.400][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-12 18:07:06.400][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-12 18:07:06.400][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-12 18:07:06.401][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-12 18:07:06.401][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-11-12 18:07:06.402][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-12 18:07:06.402][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-11-12 18:07:06.402][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-12 18:07:06.402][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-12 18:07:06.403][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-12 18:07:06.403][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-12 18:07:06.403][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-12 18:07:06.403][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-12 18:07:06.404][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-11-12 18:07:06.404][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-12 18:07:06.404][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-12 18:07:06.404][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-11-12 18:07:06.405][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-12 18:07:06.405][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-12 18:07:06.405][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-12 18:07:06.406][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-12 18:07:06.406][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-12 18:07:06.406][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-12 18:07:06.406][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-11-12 18:07:06.406][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-11-12 18:07:06.406][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-12 18:07:06.406][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-12 18:07:06.406][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-12 18:07:06.407][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-12 18:07:06.407][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-12 18:07:06.407][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-12 18:07:06.407][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-12 18:07:06.408][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-12 18:07:06.408][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-12 18:07:06.408][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-12 18:07:06.408][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-12 18:07:06.409][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-12 18:07:06.409][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-11-12 18:07:06.409][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-11-12 18:07:06.410][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-11-12 18:07:06.410][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-12 18:07:06.410][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-12 18:07:06.410][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-12 18:07:06.411][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-12 18:07:06.411][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-12 18:07:06.411][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-12 18:07:06.411][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-11-12 18:07:06.412][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-12 18:07:06.412][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-11-12 18:07:06.412][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-11-12 18:07:06.413][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-12 18:07:06.413][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-12 18:07:06.413][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-12 18:07:06.413][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-11-12 18:07:06.414][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-12 18:07:06.414][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-12 18:07:06.414][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-12 18:07:06.414][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-12 18:07:06.415][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-12 18:07:06.415][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-12 18:07:06.415][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-12 18:07:06.415][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-12 18:07:06.416][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-12 18:07:06.416][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-12 18:07:06.416][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-12 18:07:06.416][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-12 18:07:06.417][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-11-12 18:07:06.417][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-11-12 18:07:06.417][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-11-12 18:07:06.418][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-12 18:07:06.418][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-12 18:07:06.418][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-12 18:07:06.419][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-12 18:07:06.419][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-12 18:07:06.419][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-12 18:07:06.419][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-11-12 18:07:06.420][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-12 18:07:06.420][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-11-12 18:07:06.420][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-11-12 18:07:06.420][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-12 18:07:06.421][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-12 18:07:06.421][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-12 18:07:06.421][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-11-12 18:07:06.421][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-12 18:07:06.422][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-12 18:07:06.422][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-12 18:07:06.422][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-12 18:07:06.422][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-12 18:07:06.423][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-12 18:07:06.423][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-12 18:07:06.423][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-12 18:07:06.423][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-12 18:07:06.424][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-12 18:07:06.424][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-12 18:07:06.424][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-12 18:07:06.425][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-12 18:07:06.425][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.425][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.425][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.426][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.426][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.426][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.427][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.427][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.427][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.427][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.428][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.428][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.428][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.429][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.429][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.429][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.429][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.430][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.430][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.430][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.431][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.431][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.431][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.431][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.432][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.432][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.432][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.433][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.433][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.433][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.433][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.434][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.434][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.434][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.435][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.435][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.435][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.435][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.436][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.436][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.436][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.437][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.DEBUG[2025-11-12 18:07:06.437][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.437][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.437][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.438][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.438][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.438][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.439][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.439][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.439][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.439][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.440][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.440][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.441][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.441][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.441][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.442][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.442][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.442][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.442][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.443][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.443][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.443][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.443][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.445][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.445][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.445][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.446][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.446][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.446][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.447][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.447][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.447][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.447][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.448][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.448][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.448][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.448][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.449][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.449][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.449][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[2025-11-12 18:07:06.450][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-11-12 18:07:06.451][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-11-12 18:07:06.451][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-11-12 18:07:06.452][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-11-12 18:07:06.453][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-11-12 18:07:06.453][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-11-12 18:07:06.454][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-11-12 18:07:06.454][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-11-12 18:07:06.455][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-11-12 18:07:06.455][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-11-12 18:07:06.456][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-11-12 18:07:06.456][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-11-12 18:07:06.457][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-11-12 18:07:06.457][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-11-12 18:07:06.458][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-11-12 18:07:06.458][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-11-12 18:07:06.458][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-11-12 18:07:06.459][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-11-12 18:07:06.459][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-11-12 18:07:06.460][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-11-12 18:07:06.460][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-11-12 18:07:06.461][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-11-12 18:07:06.461][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-11-12 18:07:06.461][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-11-12 18:07:06.462][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-11-12 18:07:06.462][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-11-12 18:07:06.463][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-11-12 18:07:06.463][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-11-12 18:07:06.464][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-11-12 18:07:06.464][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-11-12 18:07:06.465][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-11-12 18:07:06.465][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-11-12 18:07:06.466][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-11-12 18:07:06.466][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-11-12 18:07:06.467][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-11-12 18:07:06.467][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-11-12 18:07:06.467][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-11-12 18:07:06.468][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-11-12 18:07:06.468][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-11-12 18:07:06.469][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-11-12 18:07:06.469][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-11-12 18:07:06.469][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-11-12 18:07:06.470][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-11-12 18:07:06.470][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-11-12 18:07:06.471][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-11-12 18:07:06.471][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-11-12 18:07:06.471][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-11-12 18:07:06.472][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-11-12 18:07:06.472][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-11-12 18:07:06.472][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-11-12 18:07:06.473][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-11-12 18:07:06.473][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-11-12 18:07:06.474][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-11-12 18:07:06.474][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-11-12 18:07:06.474][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-11-12 18:07:06.475][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-11-12 18:07:06.475][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-11-12 18:07:06.475][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-11-12 18:07:06.476][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-11-12 18:07:06.476][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-11-12 18:07:06.477][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-11-12 18:07:06.477][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-11-12 18:07:06.477][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-11-12 18:07:06.478][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-11-12 18:07:06.478][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-11-12 18:07:06.481][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-11-12 18:07:06.481][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-11-12 18:07:06.482][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-11-12 18:07:06.482][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-11-12 18:07:06.483][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-11-12 18:07:06.483][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-11-12 18:07:06.483][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-11-12 18:07:06.484][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-11-12 18:07:06.484][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-11-12 18:07:06.484][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-11-12 18:07:06.485][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-11-12 18:07:06.485][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-11-12 18:07:06.486][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-11-12 18:07:06.486][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-11-12 18:07:06.486][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-11-12 18:07:06.487][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-11-12 18:07:06.487][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-11-12 18:07:06.487][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-11-12 18:07:06.488][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-11-12 18:07:06.488][initialize] This is biodb version 1.19.0.
biodb.DEBUG[2025-11-12 18:07:06.489][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-12 18:07:06.489][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.489][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.489][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.490][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[2025-11-12 18:07:06.490][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.490][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:06.490][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:06.491][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.491][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.492][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.492][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.493][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.493][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:06.493][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:06.493][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.494][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.494][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.494][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.494][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.495][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:06.495][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:06.495][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.495][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.495][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.496][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[2025-11-12 18:07:06.496][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.496][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:06.496][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:06.497][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.497][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.497][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.497][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.498][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.498][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:06.498][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:06.498][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.498][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.499][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.499][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.499][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.499][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:06.500][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:06.500][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.500][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.500][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.501][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[2025-11-12 18:07:06.501][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.501][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:06.501][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:06.502][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.502][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.502][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.502][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.502][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.503][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:06.503][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:06.503][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.503][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.504][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.504][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.504][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.504][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:06.505][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:06.505][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.505][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.505][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.505][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.DEBUG[2025-11-12 18:07:06.506][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.506][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:06.506][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:06.506][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.507][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.507][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.507][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.507][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.507][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:06.508][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:06.508][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.508][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.508][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.509][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.509][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.509][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:06.509][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:06.510][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.510][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.510][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.510][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.511][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.511][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:06.511][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:06.511][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.511][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.512][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.512][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.512][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.513][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:06.513][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:06.513][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.513][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.514][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.514][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.514][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.514][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:06.514][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:06.515][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.515][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.515][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.515][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.516][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.516][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:06.516][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:06.516][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.517][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.517][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.517][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.518][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.6-arm64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-11-12 18:07:06.518][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-11-12 18:07:06.519][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-12 18:07:06.519][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-11-12 18:07:06.520][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-12 18:07:06.520][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-12 18:07:06.520][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-12 18:07:06.521][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-12 18:07:06.521][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-11-12 18:07:06.521][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-11-12 18:07:06.522][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-11-12 18:07:06.522][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-12 18:07:06.522][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-12 18:07:06.523][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-11-12 18:07:06.523][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-12 18:07:06.523][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-11-12 18:07:06.523][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-11-12 18:07:06.523][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-11-12 18:07:06.523][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-11-12 18:07:06.523][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-11-12 18:07:06.523][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-11-12 18:07:06.523][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-11-12 18:07:06.523][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-11-12 18:07:06.523][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-11-12 18:07:06.523][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-11-12 18:07:06.523][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-11-12 18:07:06.524][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-11-12 18:07:06.524][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-12 18:07:06.524][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-12 18:07:06.524][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-12 18:07:06.524][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-11-12 18:07:06.525][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-12 18:07:06.525][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-12 18:07:06.525][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-12 18:07:06.526][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-12 18:07:06.526][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-12 18:07:06.526][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-12 18:07:06.527][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-11-12 18:07:06.527][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-11-12 18:07:06.527][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-12 18:07:06.527][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-12 18:07:06.528][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-11-12 18:07:06.528][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-11-12 18:07:06.528][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-11-12 18:07:06.529][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-11-12 18:07:06.529][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-11-12 18:07:06.530][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-11-12 18:07:06.530][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-11-12 18:07:06.531][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-11-12 18:07:06.532][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-11-12 18:07:06.533][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-11-12 18:07:06.535][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-11-12 18:07:06.536][biodb::testThat]
biodb.INFO [2025-11-12 18:07:06.536][biodb::testThat] Running test function  test_chebi_convCasToChebi  (" convCasToChebi() works. ").
biodb.INFO [2025-11-12 18:07:06.536][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-12 18:07:06.537][biodb::testThat]
sched.DEBUG[2025-11-12 18:07:06.538][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-11-12 18:07:06.539][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-12 18:07:06.541][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-11-12 18:07:06.541][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-11-12 18:07:06.543][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 [2025-11-12 18:07:06.544][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-12 18:07:06.545][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-11-12 18:07:06.545][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-12 18:07:06.546][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:06.546][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:06.547][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:06.549][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.549][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.549][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.550][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".
sched.DEBUG[2025-11-12 18:07:06.550][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 [2025-11-12 18:07:06.551][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-12 18:07:06.552][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-11-12 18:07:06.553][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-12 18:07:06.553][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:06.554][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:06.554][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:06.556][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.556][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.556][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.557][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.DEBUG[2025-11-12 18:07:06.562][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:06.562][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:06.563][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:06.564][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.565][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.565][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.565][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".
sched.DEBUG[2025-11-12 18:07:06.567][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 [2025-11-12 18:07:06.568][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-12 18:07:06.568][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-11-12 18:07:06.569][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-12 18:07:06.569][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:06.569][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:06.570][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:06.571][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.572][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.572][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.572][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".
sched.DEBUG[2025-11-12 18:07:06.573][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 [2025-11-12 18:07:06.573][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-12 18:07:06.574][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-11-12 18:07:06.574][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-12 18:07:06.575][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:06.575][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:06.575][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:06.577][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.577][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.578][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.578][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[2025-11-12 18:07:06.578][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:06.578][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:06.579][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:06.580][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.580][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.581][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.581][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".
sched.DEBUG[2025-11-12 18:07:06.582][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 [2025-11-12 18:07:06.583][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-12 18:07:06.584][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-11-12 18:07:06.584][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-12 18:07:06.585][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:06.585][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:06.585][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:06.593][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.594][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.594][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.594][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".
sched.DEBUG[2025-11-12 18:07:06.595][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 [2025-11-12 18:07:06.596][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-12 18:07:06.596][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-11-12 18:07:06.597][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-12 18:07:06.597][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:06.598][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:06.598][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:06.600][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.600][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.600][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.600][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".
sched.DEBUG[2025-11-12 18:07:06.601][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 [2025-11-12 18:07:06.602][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-12 18:07:06.603][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/d853ab8a48594978d76c30b86726648a.content.
sched.DEBUG[2025-11-12 18:07:06.603][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-12 18:07:06.604][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:06.604][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:06.604][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:06.606][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.606][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.606][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.607][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.INFO [2025-11-12 18:07:06.616][biodb::testThat]
biodb.INFO [2025-11-12 18:07:06.616][biodb::testThat] Running test function  test_chebi_convInchiToChebi  (" convInchiToChebi() works. ").
biodb.INFO [2025-11-12 18:07:06.616][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-12 18:07:06.617][biodb::testThat]
sched.DEBUG[2025-11-12 18:07:06.618][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 [2025-11-12 18:07:06.624][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-12 18:07:06.625][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/aa56e28005d49da17591454624aabcd2.content.
sched.DEBUG[2025-11-12 18:07:06.626][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-12 18:07:06.626][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:06.627][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:06.627][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:06.629][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.629][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.630][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.630][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-11-12 18:07:06.631][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 [2025-11-12 18:07:06.632][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-12 18:07:06.633][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/c62078a064e3122e21e26c3428179396.content.
sched.DEBUG[2025-11-12 18:07:06.634][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-12 18:07:06.634][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:06.634][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:06.635][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:06.637][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.637][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.637][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.637][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-11-12 18:07:06.639][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-11-12 18:07:06.640][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-11-12 18:07:06.640][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-11-12 18:07:06.640][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:06.640][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:06.641][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.641][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.641][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.641][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-11-12 18:07:06.644][biodb::testContext]
biodb.INFO [2025-11-12 18:07:06.645][biodb::testContext] ********************************************************************************
biodb.INFO [2025-11-12 18:07:06.645][biodb::testContext] Test context - Test web services
biodb.INFO [2025-11-12 18:07:06.645][biodb::testContext] ********************************************************************************
biodb.INFO [2025-11-12 18:07:06.646][biodb::testContext]
biodb.INFO [2025-11-12 18:07:06.646][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.19.0.
biodb.DEBUG[2025-11-12 18:07:06.647][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.6-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-11-12 18:07:06.649][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-12 18:07:06.649][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-11-12 18:07:06.649][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-11-12 18:07:06.649][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.650][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.650][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.650][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-11-12 18:07:06.650][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-11-12 18:07:06.651][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.651][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.651][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.651][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-11-12 18:07:06.652][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-11-12 18:07:06.652][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.652][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.653][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.653][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-11-12 18:07:06.653][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-11-12 18:07:06.653][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-11-12 18:07:06.654][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.654][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.654][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.655][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-11-12 18:07:06.655][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-11-12 18:07:06.655][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-11-12 18:07:06.655][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.656][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.656][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.657][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-11-12 18:07:06.658][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-11-12 18:07:06.658][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.658][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.658][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.659][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-11-12 18:07:06.659][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-11-12 18:07:06.659][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-11-12 18:07:06.660][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.660][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.660][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.660][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-11-12 18:07:06.661][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-11-12 18:07:06.661][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.661][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.661][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.662][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-11-12 18:07:06.662][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-11-12 18:07:06.662][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-11-12 18:07:06.663][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.663][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.663][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.663][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-11-12 18:07:06.664][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-11-12 18:07:06.664][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-11-12 18:07:06.664][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-11-12 18:07:06.664][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-11-12 18:07:06.665][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-11-12 18:07:06.665][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.665][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.665][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.666][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-11-12 18:07:06.666][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-11-12 18:07:06.666][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.666][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.667][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.668][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-11-12 18:07:06.668][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-11-12 18:07:06.669][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.669][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.669][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.669][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-11-12 18:07:06.670][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-11-12 18:07:06.670][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.670][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.670][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.671][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-11-12 18:07:06.671][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-11-12 18:07:06.671][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-11-12 18:07:06.671][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.672][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.672][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.672][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-11-12 18:07:06.672][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-11-12 18:07:06.684][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-11-12 18:07:06.685][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.685][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.685][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.686][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-11-12 18:07:06.686][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-11-12 18:07:06.686][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-11-12 18:07:06.687][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.687][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.687][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.687][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-11-12 18:07:06.688][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-12 18:07:06.688][self$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[2025-11-12 18:07:06.689][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-12 18:07:06.689][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-12 18:07:06.689][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-12 18:07:06.689][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-12 18:07:06.690][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-12 18:07:06.690][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-12 18:07:06.690][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-11-12 18:07:06.691][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-12 18:07:06.691][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-12 18:07:06.691][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-11-12 18:07:06.691][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-12 18:07:06.692][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-12 18:07:06.692][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-12 18:07:06.692][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-12 18:07:06.692][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-12 18:07:06.692][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-12 18:07:06.692][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-11-12 18:07:06.692][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-11-12 18:07:06.692][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-12 18:07:06.693][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-12 18:07:06.693][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-12 18:07:06.693][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-12 18:07:06.693][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-12 18:07:06.694][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-12 18:07:06.694][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-12 18:07:06.694][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-12 18:07:06.695][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-12 18:07:06.695][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-12 18:07:06.695][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-12 18:07:06.695][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-12 18:07:06.696][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-11-12 18:07:06.696][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-12 18:07:06.696][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-11-12 18:07:06.697][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-12 18:07:06.697][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-12 18:07:06.697][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-12 18:07:06.698][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-12 18:07:06.698][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-12 18:07:06.698][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-12 18:07:06.698][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-11-12 18:07:06.699][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-12 18:07:06.699][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-12 18:07:06.699][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-11-12 18:07:06.699][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-12 18:07:06.700][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-12 18:07:06.700][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-12 18:07:06.700][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-12 18:07:06.700][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-12 18:07:06.700][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-12 18:07:06.700][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-11-12 18:07:06.700][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-11-12 18:07:06.701][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-12 18:07:06.701][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-12 18:07:06.701][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-12 18:07:06.701][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-12 18:07:06.702][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-12 18:07:06.702][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-12 18:07:06.702][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-12 18:07:06.702][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-12 18:07:06.703][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-12 18:07:06.703][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-12 18:07:06.703][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-12 18:07:06.703][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-12 18:07:06.704][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-11-12 18:07:06.704][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-11-12 18:07:06.705][self$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[2025-11-12 18:07:06.705][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-12 18:07:06.705][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-12 18:07:06.705][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-12 18:07:06.706][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-12 18:07:06.706][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-12 18:07:06.706][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-12 18:07:06.706][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-11-12 18:07:06.707][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-12 18:07:06.707][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-11-12 18:07:06.707][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-11-12 18:07:06.707][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-12 18:07:06.708][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-12 18:07:06.708][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-12 18:07:06.708][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-11-12 18:07:06.709][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-12 18:07:06.709][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-12 18:07:06.709][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-12 18:07:06.709][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-12 18:07:06.710][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-12 18:07:06.710][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-12 18:07:06.710][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-12 18:07:06.710][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-12 18:07:06.711][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-12 18:07:06.711][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-12 18:07:06.711][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-12 18:07:06.711][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-12 18:07:06.712][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-11-12 18:07:06.712][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-11-12 18:07:06.713][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-11-12 18:07:06.713][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-12 18:07:06.713][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-12 18:07:06.714][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-12 18:07:06.714][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-12 18:07:06.714][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-12 18:07:06.715][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-12 18:07:06.715][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-11-12 18:07:06.715][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-12 18:07:06.716][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-11-12 18:07:06.716][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-11-12 18:07:06.716][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-12 18:07:06.717][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-12 18:07:06.717][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-12 18:07:06.717][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-11-12 18:07:06.718][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-12 18:07:06.718][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-12 18:07:06.718][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-12 18:07:06.719][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-12 18:07:06.719][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-12 18:07:06.719][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-12 18:07:06.719][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-12 18:07:06.720][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-12 18:07:06.720][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-12 18:07:06.720][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-12 18:07:06.724][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-12 18:07:06.724][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-12 18:07:06.725][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-12 18:07:06.725][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.725][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.725][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.726][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.726][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.726][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.727][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.727][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.727][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.728][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.728][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.728][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.728][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.729][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.729][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.729][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.729][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.730][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.730][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.730][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.730][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.731][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.731][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.731][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.731][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.732][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.732][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.732][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.732][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.733][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.733][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.733][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[2025-11-12 18:07:06.734][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.734][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.734][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.734][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.735][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.735][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.735][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.735][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.736][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.736][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.736][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.737][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.737][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.737][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.737][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[2025-11-12 18:07:06.738][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.738][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.738][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.738][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.739][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.739][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.739][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.739][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.740][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.740][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.740][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.740][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.741][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.741][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.741][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.DEBUG[2025-11-12 18:07:06.741][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.742][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.742][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.742][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.742][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.742][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.743][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.743][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.743][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.743][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[2025-11-12 18:07:06.744][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.744][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.744][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.744][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.745][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.745][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.745][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.745][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.745][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.746][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.DEBUG[2025-11-12 18:07:06.746][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-11-12 18:07:06.746][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-11-12 18:07:06.747][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-11-12 18:07:06.747][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-11-12 18:07:06.747][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-11-12 18:07:06.748][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-11-12 18:07:06.748][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-11-12 18:07:06.749][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-11-12 18:07:06.749][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-11-12 18:07:06.749][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-11-12 18:07:06.750][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-11-12 18:07:06.750][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-11-12 18:07:06.750][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-11-12 18:07:06.751][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-11-12 18:07:06.751][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-11-12 18:07:06.752][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-11-12 18:07:06.752][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-11-12 18:07:06.752][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-11-12 18:07:06.753][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-11-12 18:07:06.753][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-11-12 18:07:06.753][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-11-12 18:07:06.754][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-11-12 18:07:06.754][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-11-12 18:07:06.755][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-11-12 18:07:06.755][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-11-12 18:07:06.755][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-11-12 18:07:06.756][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-11-12 18:07:06.756][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-11-12 18:07:06.756][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-11-12 18:07:06.757][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-11-12 18:07:06.757][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-11-12 18:07:06.758][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-11-12 18:07:06.758][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-11-12 18:07:06.758][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-11-12 18:07:06.759][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-11-12 18:07:06.759][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-11-12 18:07:06.759][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-11-12 18:07:06.760][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-11-12 18:07:06.760][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-11-12 18:07:06.761][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-11-12 18:07:06.761][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-11-12 18:07:06.761][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-11-12 18:07:06.762][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-11-12 18:07:06.762][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-11-12 18:07:06.762][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-11-12 18:07:06.763][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-11-12 18:07:06.763][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-11-12 18:07:06.764][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-11-12 18:07:06.764][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-11-12 18:07:06.764][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-11-12 18:07:06.765][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-11-12 18:07:06.765][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-11-12 18:07:06.765][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-11-12 18:07:06.766][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-11-12 18:07:06.766][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-11-12 18:07:06.767][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-11-12 18:07:06.767][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-11-12 18:07:06.767][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-11-12 18:07:06.768][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-11-12 18:07:06.768][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-11-12 18:07:06.768][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-11-12 18:07:06.769][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-11-12 18:07:06.769][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-11-12 18:07:06.770][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-11-12 18:07:06.770][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-11-12 18:07:06.770][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-11-12 18:07:06.771][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-11-12 18:07:06.771][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-11-12 18:07:06.771][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-11-12 18:07:06.772][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-11-12 18:07:06.772][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-11-12 18:07:06.772][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-11-12 18:07:06.773][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-11-12 18:07:06.773][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-11-12 18:07:06.774][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-11-12 18:07:06.774][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-11-12 18:07:06.774][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-11-12 18:07:06.775][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-11-12 18:07:06.775][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-11-12 18:07:06.775][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-11-12 18:07:06.776][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-11-12 18:07:06.776][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-11-12 18:07:06.777][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-11-12 18:07:06.777][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-11-12 18:07:06.778][initialize] This is biodb version 1.19.0.
biodb.DEBUG[2025-11-12 18:07:06.778][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-12 18:07:06.778][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.778][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.779][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.779][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.779][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.779][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:06.780][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:06.780][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.780][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.780][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.781][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.781][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.781][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:06.781][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:06.781][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.782][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.782][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.782][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.782][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.783][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:06.783][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:06.783][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.783][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.784][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.784][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.784][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.784][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:06.784][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:06.785][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.785][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.785][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.785][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.786][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.786][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:06.786][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:06.786][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.787][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.787][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.787][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.787][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.787][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:06.788][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:06.788][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.788][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.788][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.789][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.789][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.789][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:06.789][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:06.789][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.790][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.790][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.790][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[2025-11-12 18:07:06.790][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.791][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:06.791][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:06.791][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.791][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.792][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.792][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.792][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.792][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:06.792][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:06.793][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.793][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.793][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.793][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.794][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.794][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:06.794][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:06.794][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.795][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.795][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.795][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.795][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.795][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:06.796][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:06.796][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.796][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.796][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.797][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.797][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.797][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:06.797][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:06.797][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.798][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.798][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.798][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.798][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.799][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:06.799][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:06.799][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.799][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.800][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.800][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.800][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.800][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:06.800][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:06.801][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.801][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.801][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.801][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.802][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.802][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:06.802][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:06.802][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.802][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.803][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.803][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.803][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.803][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:06.804][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:06.804][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.804][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.804][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.805][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.805][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.6-arm64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-11-12 18:07:06.806][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-11-12 18:07:06.809][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-12 18:07:06.810][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-11-12 18:07:06.810][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-12 18:07:06.810][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-12 18:07:06.810][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-12 18:07:06.811][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-12 18:07:06.811][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-11-12 18:07:06.811][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-11-12 18:07:06.811][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-11-12 18:07:06.812][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-12 18:07:06.812][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-12 18:07:06.812][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-11-12 18:07:06.813][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-12 18:07:06.813][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-11-12 18:07:06.813][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-11-12 18:07:06.813][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-11-12 18:07:06.813][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-11-12 18:07:06.813][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-11-12 18:07:06.813][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-11-12 18:07:06.813][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-11-12 18:07:06.813][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-11-12 18:07:06.813][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-11-12 18:07:06.813][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-11-12 18:07:06.813][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-11-12 18:07:06.813][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-11-12 18:07:06.814][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-12 18:07:06.814][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-12 18:07:06.814][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-12 18:07:06.814][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-11-12 18:07:06.814][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-12 18:07:06.815][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-12 18:07:06.815][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-12 18:07:06.815][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-12 18:07:06.816][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-12 18:07:06.816][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-12 18:07:06.816][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-11-12 18:07:06.816][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-11-12 18:07:06.816][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-12 18:07:06.817][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-12 18:07:06.817][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-11-12 18:07:06.817][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-11-12 18:07:06.817][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-11-12 18:07:06.818][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-11-12 18:07:06.818][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-11-12 18:07:06.819][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-11-12 18:07:06.819][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-11-12 18:07:06.820][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-11-12 18:07:06.821][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-11-12 18:07:06.822][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-11-12 18:07:06.824][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-11-12 18:07:06.824][biodb::testThat]
biodb.INFO [2025-11-12 18:07:06.825][biodb::testThat] Running test function  test.chebi.wsGetLiteEntity  (" Web service getLiteEntity works fine. ").
biodb.INFO [2025-11-12 18:07:06.825][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-12 18:07:06.825][biodb::testThat]
sched.DEBUG[2025-11-12 18:07:06.826][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-11-12 18:07:06.827][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-12 18:07:06.829][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-11-12 18:07:06.830][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-11-12 18:07:06.831][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI ID&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-11-12 18:07:06.832][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-12 18:07:06.833][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/45b8073beb9f4a9f751edf98e80ca9dd.content.
sched.DEBUG[2025-11-12 18:07:06.834][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.INFO [2025-11-12 18:07:06.841][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-11-12 18:07:06.841][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-11-12 18:07:06.842][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-11-12 18:07:06.842][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:06.842][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:06.842][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.843][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.843][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.843][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-11-12 18:07:06.845][biodb::testContext]
biodb.INFO [2025-11-12 18:07:06.845][biodb::testContext] ********************************************************************************
biodb.INFO [2025-11-12 18:07:06.845][biodb::testContext] Test context - Non regression tests
biodb.INFO [2025-11-12 18:07:06.845][biodb::testContext] ********************************************************************************
biodb.INFO [2025-11-12 18:07:06.846][biodb::testContext]
biodb.INFO [2025-11-12 18:07:06.846][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.19.0.
biodb.DEBUG[2025-11-12 18:07:06.847][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.6-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-11-12 18:07:06.849][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-12 18:07:06.850][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-11-12 18:07:06.850][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-11-12 18:07:06.850][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.850][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.851][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.851][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-11-12 18:07:06.851][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-11-12 18:07:06.851][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.852][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.852][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.852][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-11-12 18:07:06.853][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-11-12 18:07:06.853][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.853][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.853][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.853][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-11-12 18:07:06.854][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-11-12 18:07:06.854][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-11-12 18:07:06.854][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.855][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.855][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.855][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-11-12 18:07:06.855][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-11-12 18:07:06.856][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-11-12 18:07:06.856][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.856][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.856][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.857][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-11-12 18:07:06.857][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-11-12 18:07:06.857][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.857][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.858][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.858][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-11-12 18:07:06.858][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-11-12 18:07:06.858][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-11-12 18:07:06.859][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.859][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.859][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.859][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-11-12 18:07:06.860][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-11-12 18:07:06.860][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.860][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.860][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.861][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-11-12 18:07:06.861][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-11-12 18:07:06.861][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-11-12 18:07:06.861][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.862][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.862][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.862][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-11-12 18:07:06.862][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-11-12 18:07:06.863][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-11-12 18:07:06.863][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-11-12 18:07:06.863][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-11-12 18:07:06.864][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-11-12 18:07:06.864][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.864][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.864][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.865][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-11-12 18:07:06.865][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-11-12 18:07:06.865][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.865][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.866][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.866][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-11-12 18:07:06.866][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-11-12 18:07:06.866][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.867][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.867][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.867][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-11-12 18:07:06.867][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-11-12 18:07:06.868][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.868][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.868][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.868][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-11-12 18:07:06.869][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-11-12 18:07:06.869][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-11-12 18:07:06.869][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.869][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.870][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.870][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-11-12 18:07:06.870][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-11-12 18:07:06.879][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-11-12 18:07:06.880][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.880][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.880][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.881][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-11-12 18:07:06.881][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-11-12 18:07:06.881][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-11-12 18:07:06.882][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.882][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.882][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.882][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-11-12 18:07:06.883][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-12 18:07:06.883][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-11-12 18:07:06.884][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-12 18:07:06.884][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-12 18:07:06.884][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-12 18:07:06.884][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-12 18:07:06.885][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-12 18:07:06.885][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-12 18:07:06.885][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-11-12 18:07:06.886][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-12 18:07:06.886][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-12 18:07:06.886][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-11-12 18:07:06.887][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-12 18:07:06.887][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-12 18:07:06.887][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-12 18:07:06.887][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-12 18:07:06.887][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-12 18:07:06.887][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-12 18:07:06.887][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-11-12 18:07:06.887][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-11-12 18:07:06.888][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-12 18:07:06.888][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-12 18:07:06.888][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-12 18:07:06.889][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-12 18:07:06.889][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-12 18:07:06.889][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-12 18:07:06.889][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-12 18:07:06.890][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-12 18:07:06.890][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-12 18:07:06.890][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-12 18:07:06.891][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-12 18:07:06.891][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-12 18:07:06.891][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-11-12 18:07:06.892][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-12 18:07:06.892][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-11-12 18:07:06.893][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-12 18:07:06.893][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-12 18:07:06.893][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-12 18:07:06.893][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-12 18:07:06.894][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-12 18:07:06.894][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-12 18:07:06.894][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-11-12 18:07:06.894][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-12 18:07:06.895][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-12 18:07:06.895][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-11-12 18:07:06.895][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-12 18:07:06.895][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-12 18:07:06.896][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-12 18:07:06.896][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-12 18:07:06.896][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-12 18:07:06.896][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-12 18:07:06.896][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-11-12 18:07:06.896][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-11-12 18:07:06.896][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-12 18:07:06.897][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-12 18:07:06.897][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-12 18:07:06.897][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-12 18:07:06.897][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-12 18:07:06.898][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-12 18:07:06.898][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-12 18:07:06.898][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-12 18:07:06.898][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-12 18:07:06.899][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-12 18:07:06.899][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-12 18:07:06.899][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-12 18:07:06.899][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-11-12 18:07:06.900][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-11-12 18:07:06.900][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-11-12 18:07:06.901][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-12 18:07:06.901][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-12 18:07:06.901][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-12 18:07:06.901][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-12 18:07:06.902][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-12 18:07:06.902][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-12 18:07:06.902][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-11-12 18:07:06.902][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-12 18:07:06.903][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-11-12 18:07:06.903][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-11-12 18:07:06.903][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-12 18:07:06.903][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-12 18:07:06.904][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-12 18:07:06.904][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-11-12 18:07:06.904][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-12 18:07:06.904][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-12 18:07:06.905][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-12 18:07:06.905][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-12 18:07:06.905][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-12 18:07:06.905][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-12 18:07:06.906][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-12 18:07:06.906][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-12 18:07:06.906][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-12 18:07:06.906][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-12 18:07:06.907][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-12 18:07:06.907][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-12 18:07:06.908][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-11-12 18:07:06.908][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-11-12 18:07:06.908][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-11-12 18:07:06.909][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-12 18:07:06.909][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-12 18:07:06.909][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-12 18:07:06.909][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-12 18:07:06.910][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-12 18:07:06.910][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-12 18:07:06.910][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-11-12 18:07:06.911][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-12 18:07:06.911][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-11-12 18:07:06.912][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-11-12 18:07:06.912][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-12 18:07:06.913][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-12 18:07:06.913][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-12 18:07:06.913][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-11-12 18:07:06.914][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-12 18:07:06.914][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-12 18:07:06.914][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-12 18:07:06.914][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-12 18:07:06.915][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-12 18:07:06.915][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-12 18:07:06.915][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-12 18:07:06.916][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-12 18:07:06.916][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-12 18:07:06.916][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-12 18:07:06.917][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-12 18:07:06.917][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-12 18:07:06.917][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-12 18:07:06.918][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.918][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.918][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.918][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.919][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.919][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.919][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.920][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.920][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.920][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.920][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.921][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.921][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.921][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.921][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.922][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.925][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.926][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.926][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.926][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.926][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.927][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.927][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.927][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.927][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.928][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.928][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.928][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.928][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.928][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.929][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.929][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.929][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.929][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.930][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.930][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.930][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.930][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.931][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.931][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.931][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.931][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.932][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.932][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.932][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.932][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.933][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.933][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.933][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.933][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.934][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.934][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.934][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.934][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.935][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.935][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.935][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.935][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.935][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.936][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.936][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.936][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.936][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.937][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.937][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.937][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.937][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.938][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.938][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.938][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.938][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.939][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.939][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.939][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.939][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.940][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.940][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.940][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.940][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.940][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.941][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.941][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.941][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-11-12 18:07:06.942][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-11-12 18:07:06.942][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-11-12 18:07:06.942][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-11-12 18:07:06.943][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-11-12 18:07:06.943][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-11-12 18:07:06.944][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-11-12 18:07:06.944][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-11-12 18:07:06.945][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-11-12 18:07:06.945][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-11-12 18:07:06.945][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-11-12 18:07:06.946][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-11-12 18:07:06.946][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-11-12 18:07:06.946][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-11-12 18:07:06.947][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-11-12 18:07:06.947][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-11-12 18:07:06.948][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-11-12 18:07:06.948][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-11-12 18:07:06.948][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-11-12 18:07:06.949][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-11-12 18:07:06.949][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-11-12 18:07:06.950][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-11-12 18:07:06.950][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-11-12 18:07:06.950][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-11-12 18:07:06.951][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-11-12 18:07:06.951][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-11-12 18:07:06.951][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-11-12 18:07:06.952][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-11-12 18:07:06.952][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-11-12 18:07:06.953][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-11-12 18:07:06.953][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-11-12 18:07:06.953][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-11-12 18:07:06.954][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-11-12 18:07:06.954][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-11-12 18:07:06.955][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-11-12 18:07:06.955][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-11-12 18:07:06.955][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-11-12 18:07:06.956][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-11-12 18:07:06.956][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-11-12 18:07:06.957][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-11-12 18:07:06.957][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-11-12 18:07:06.957][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-11-12 18:07:06.958][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-11-12 18:07:06.958][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-11-12 18:07:06.959][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-11-12 18:07:06.959][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-11-12 18:07:06.959][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-11-12 18:07:06.960][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-11-12 18:07:06.960][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-11-12 18:07:06.960][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-11-12 18:07:06.961][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-11-12 18:07:06.961][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-11-12 18:07:06.962][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-11-12 18:07:06.962][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-11-12 18:07:06.962][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-11-12 18:07:06.963][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-11-12 18:07:06.963][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-11-12 18:07:06.964][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-11-12 18:07:06.964][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-11-12 18:07:06.964][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-11-12 18:07:06.965][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-11-12 18:07:06.965][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-11-12 18:07:06.965][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-11-12 18:07:06.966][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-11-12 18:07:06.966][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-11-12 18:07:06.967][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-11-12 18:07:06.967][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-11-12 18:07:06.967][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-11-12 18:07:06.968][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-11-12 18:07:06.968][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-11-12 18:07:06.968][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-11-12 18:07:06.969][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-11-12 18:07:06.969][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-11-12 18:07:06.970][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-11-12 18:07:06.970][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-11-12 18:07:06.970][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-11-12 18:07:06.971][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-11-12 18:07:06.971][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-11-12 18:07:06.972][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-11-12 18:07:06.972][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-11-12 18:07:06.973][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-11-12 18:07:06.973][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-11-12 18:07:06.974][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-11-12 18:07:06.974][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-11-12 18:07:06.975][initialize] This is biodb version 1.19.0.
biodb.DEBUG[2025-11-12 18:07:06.975][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-12 18:07:06.976][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.976][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.976][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.976][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.977][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.977][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:06.977][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:06.978][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.978][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.978][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.979][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.979][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.979][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:06.979][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:06.980][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.980][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.980][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.981][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.981][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.981][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:06.981][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:06.982][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.982][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.982][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.983][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[2025-11-12 18:07:06.983][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.983][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:06.984][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:06.984][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.984][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.984][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.985][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.985][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.985][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:06.986][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:06.986][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.986][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.987][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.987][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[2025-11-12 18:07:06.987][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.987][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:06.988][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:06.988][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.988][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.988][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.989][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.989][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.989][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:06.989][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:06.990][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.990][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.990][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.990][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[2025-11-12 18:07:06.991][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.991][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:06.991][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:06.991][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.992][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.992][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.992][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[2025-11-12 18:07:06.993][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.993][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:06.993][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:06.993][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.994][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.994][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.994][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.994][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.995][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:06.995][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:06.995][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.995][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.996][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.996][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[2025-11-12 18:07:06.996][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.997][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:06.997][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:06.997][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.997][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.998][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:06.998][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:06.998][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:06.998][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:06.999][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:06.999][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:06.999][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:06.999][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:07.000][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:07.000][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:07.000][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:07.000][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:07.000][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:07.001][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:07.001][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:07.001][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".
biodb.DEBUG[2025-11-12 18:07:07.001][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:07.002][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:07.002][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:07.002][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:07.002][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:07.003][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:07.003][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:07.003][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:07.003][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:07.003][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:07.004][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:07.004][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:07.004][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:07.004][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:07.005][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-12 18:07:07.005][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:07.005][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:07.005][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:07.006][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:07.006][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:07.006][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-12 18:07:07.007][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.6-arm64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-11-12 18:07:07.007][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-11-12 18:07:07.008][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-12 18:07:07.008][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-11-12 18:07:07.008][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-12 18:07:07.009][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-12 18:07:07.009][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-12 18:07:07.009][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-12 18:07:07.009][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-11-12 18:07:07.010][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-11-12 18:07:07.010][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-11-12 18:07:07.010][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-12 18:07:07.011][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-12 18:07:07.011][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-11-12 18:07:07.011][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-12 18:07:07.011][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-11-12 18:07:07.011][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-11-12 18:07:07.011][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-11-12 18:07:07.011][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-11-12 18:07:07.011][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-11-12 18:07:07.011][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-11-12 18:07:07.011][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-11-12 18:07:07.011][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-11-12 18:07:07.011][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-11-12 18:07:07.011][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-11-12 18:07:07.011][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-11-12 18:07:07.013][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-11-12 18:07:07.013][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-12 18:07:07.013][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-12 18:07:07.013][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-12 18:07:07.016][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-11-12 18:07:07.016][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-12 18:07:07.016][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-12 18:07:07.017][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-12 18:07:07.017][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-12 18:07:07.017][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-12 18:07:07.018][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-12 18:07:07.018][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-11-12 18:07:07.018][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-11-12 18:07:07.018][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-12 18:07:07.018][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-12 18:07:07.019][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-11-12 18:07:07.019][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-11-12 18:07:07.019][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-11-12 18:07:07.019][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-11-12 18:07:07.020][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-11-12 18:07:07.020][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-11-12 18:07:07.021][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-11-12 18:07:07.021][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-11-12 18:07:07.021][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-11-12 18:07:07.023][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-11-12 18:07:07.024][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-11-12 18:07:07.025][biodb::testThat]
biodb.INFO [2025-11-12 18:07:07.025][biodb::testThat] Running test function  test.chebi.encoding.issue.in.xml  (" ChEBI encoding issue in XML is handled. ").
biodb.INFO [2025-11-12 18:07:07.025][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-12 18:07:07.026][biodb::testThat]
sched.DEBUG[2025-11-12 18:07:07.026][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-11-12 18:07:07.027][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-12 18:07:07.029][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-11-12 18:07:07.029][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-11-12 18:07:07.030][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 [2025-11-12 18:07:07.031][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-12 18:07:07.032][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/45b8073beb9f4a9f751edf98e80ca9dd.content.
sched.DEBUG[2025-11-12 18:07:07.032][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-12 18:07:07.034][private$loadEntries] Creating entries from ids [1]: "2571".
biodb.DEBUG[2025-11-12 18:07:07.037][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-12 18:07:07.037][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-12 18:07:07.041][FUN] Found encoding UTF-8 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2571.xml.
biodb.DEBUG[2025-11-12 18:07:07.042][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-12 18:07:07.042][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-12 18:07:07.042][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-12 18:07:07.043][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-12 18:07:07.043][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:07.044][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:07.045][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:07.046][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:07.046][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:07.046][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.TRACE[2025-11-12 18:07:07.048][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:07.048][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:07.048][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:07.052][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:07.053][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:07.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:07.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:07.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:07.054][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-12 18:07:07.055][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-12 18:07:07.055][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:07.056][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:07.056][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-12 18:07:07.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-12 18:07:07.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:07.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:07.058][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-12 18:07:07.058][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-12 18:07:07.059][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:07.059][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:07.059][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-12 18:07:07.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-12 18:07:07.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:07.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:07.060][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-12 18:07:07.061][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-12 18:07:07.061][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:07.061][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:07.062][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-12 18:07:07.062][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-12 18:07:07.064][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:07.065][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:07.065][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-12 18:07:07.066][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-12 18:07:07.066][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:07.066][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:07.067][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-12 18:07:07.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-12 18:07:07.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:07.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:07.068][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-12 18:07:07.068][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:07.069][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:07.069][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:07.069][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-12 18:07:07.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-12 18:07:07.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:07.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:07.071][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:07.071][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:07.072][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:07.072][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:07.072][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:07.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-12 18:07:07.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:07.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:07.074][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-12 18:07:07.074][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-12 18:07:07.075][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:07.076][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:07.077][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-12 18:07:07.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-12 18:07:07.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:07.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:07.078][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-12 18:07:07.078][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-12 18:07:07.078][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:07.079][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:07.079][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-12 18:07:07.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-12 18:07:07.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:07.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:07.081][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-12 18:07:07.082][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-12 18:07:07.082][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:07.082][ef$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:07.083][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-12 18:07:07.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-12 18:07:07.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:07.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:07.084][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:07.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:07.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:07.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:07.086][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:07.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:07.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:07.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:07.087][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:07.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:07.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:07.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:07.088][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-12 18:07:07.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-12 18:07:07.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:07.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:07.089][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:07.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:07.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:07.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:07.090][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:07.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:07.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:07.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:07.092][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:07.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:07.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:07.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:07.093][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:07.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:07.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:07.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:07.094][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:07.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:07.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:07.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-12 18:07:07.095][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-12 18:07:07.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-12 18:07:07.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-12 18:07:07.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-12 18:07:07.096][self$createEntryFromContent] Accession numbers: 2571.
biodb.INFO [2025-11-12 18:07:07.098][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-11-12 18:07:07.098][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-11-12 18:07:07.099][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-11-12 18:07:07.099][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-12 18:07:07.099][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-12 18:07:07.099][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-12 18:07:07.100][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-12 18:07:07.100][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-11-12 18:07:07.100][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".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 357 ]
> 
> proc.time()
   user  system elapsed 
  5.840   0.428  10.341

Example timings

biodbChebi.Rcheck/biodbChebi-Ex.timings

nameusersystemelapsed
ChebiConn0.7950.2721.677
ChebiEntry0.1080.0110.190