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This page was generated on 2025-08-30 12:05 -0400 (Sat, 30 Aug 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.3 LTS)x86_644.5.1 (2025-06-13) -- "Great Square Root" 4824
lconwaymacOS 12.7.1 Montereyx86_644.5.1 (2025-06-13) -- "Great Square Root" 4615
kjohnson3macOS 13.7.7 Venturaarm644.5.1 Patched (2025-06-14 r88325) -- "Great Square Root" 4562
taishanLinux (openEuler 24.03 LTS)aarch644.5.0 (2025-04-11) -- "How About a Twenty-Six" 4541
Click on any hostname to see more info about the system (e.g. compilers)      (*) as reported by 'uname -p', except on Windows and Mac OS X

Package 206/2320HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
biodbChebi 1.15.1  (landing page)
Pierrick Roger
Snapshot Date: 2025-08-29 13:45 -0400 (Fri, 29 Aug 2025)
git_url: https://git.bioconductor.org/packages/biodbChebi
git_branch: devel
git_last_commit: b5e26aa
git_last_commit_date: 2025-06-24 10:11:00 -0400 (Tue, 24 Jun 2025)
nebbiolo2Linux (Ubuntu 24.04.3 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
lconwaymacOS 12.7.1 Monterey / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published
kjohnson3macOS 13.7.7 Ventura / arm64  OK    OK    OK    OK  UNNEEDED, same version is already published
taishanLinux (openEuler 24.03 LTS) / aarch64  OK    ERROR  skipped

CHECK results for biodbChebi on lconway

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

raw results


Summary

Package: biodbChebi
Version: 1.15.1
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:biodbChebi.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings biodbChebi_1.15.1.tar.gz
StartedAt: 2025-08-29 19:26:13 -0400 (Fri, 29 Aug 2025)
EndedAt: 2025-08-29 19:27:38 -0400 (Fri, 29 Aug 2025)
EllapsedTime: 85.2 seconds
RetCode: 0
Status:   OK  
CheckDir: biodbChebi.Rcheck
Warnings: 0

Command output

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


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

Status: OK

Installation output

biodbChebi.Rcheck/00install.out

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


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

Tests output

biodbChebi.Rcheck/tests/testthat.Rout


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

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

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

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

> # vi: fdm=marker
> # Script needed to run testthat automatically from ‘R CMD check’. See
> # testthat::test_dir documentation.
> library(testthat)
> library(biodbChebi)
> Sys.setenv(TESTTHAT_REPORTER="summary")
> Sys.setenv(BIODB_LOG_DST="console")
> test_check("biodbChebi")
biodb.INFO [2025-08-29 19:27:09.284][biodb::testContext]
biodb.INFO [2025-08-29 19:27:09.290][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-29 19:27:09.291][biodb::testContext] Test context - Generic tests
biodb.INFO [2025-08-29 19:27:09.293][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-29 19:27:09.294][biodb::testContext]
biodb.INFO [2025-08-29 19:27:09.303][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.1.
biodb.DEBUG[2025-08-29 19:27:09.306][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-08-29 19:27:09.317][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-29 19:27:09.319][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-08-29 19:27:09.320][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-08-29 19:27:09.321][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:09.323][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:09.324][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:09.325][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-08-29 19:27:09.349][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-08-29 19:27:09.351][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:09.352][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:09.353][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[2025-08-29 19:27:09.354][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-08-29 19:27:09.356][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-08-29 19:27:09.357][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:09.358][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:09.359][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:09.360][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-08-29 19:27:09.362][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-08-29 19:27:09.363][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-08-29 19:27:09.364][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:09.365][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:09.366][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:09.368][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-08-29 19:27:09.369][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-08-29 19:27:09.371][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-08-29 19:27:09.372][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:09.373][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:09.374][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:09.375][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-08-29 19:27:09.377][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-08-29 19:27:09.378][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:09.379][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:09.380][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:09.381][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-08-29 19:27:09.382][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-08-29 19:27:09.383][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-08-29 19:27:09.385][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:09.386][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:09.387][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:09.388][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-08-29 19:27:09.390][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-08-29 19:27:09.391][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:09.392][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:09.393][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[2025-08-29 19:27:09.395][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-08-29 19:27:09.396][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-08-29 19:27:09.397][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-08-29 19:27:09.399][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:09.400][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:09.401][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:09.403][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-08-29 19:27:09.404][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-08-29 19:27:09.405][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-08-29 19:27:09.407][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-08-29 19:27:09.408][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-08-29 19:27:09.409][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-08-29 19:27:09.411][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:09.411][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:09.413][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:09.414][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-08-29 19:27:09.415][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-08-29 19:27:09.417][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:09.418][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:09.419][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:09.421][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-08-29 19:27:09.422][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-08-29 19:27:09.424][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:09.425][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:09.426][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:09.427][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-08-29 19:27:09.429][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-08-29 19:27:09.430][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:09.431][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:09.433][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:09.434][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-08-29 19:27:09.435][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-08-29 19:27:09.437][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-08-29 19:27:09.438][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:09.439][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:09.440][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.DEBUG[2025-08-29 19:27:09.442][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-08-29 19:27:09.443][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-08-29 19:27:09.481][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-08-29 19:27:09.482][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:09.484][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:09.485][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:09.486][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-08-29 19:27:09.488][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-08-29 19:27:09.489][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-08-29 19:27:09.490][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:09.491][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:09.492][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[2025-08-29 19:27:09.496][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-08-29 19:27:09.549][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-29 19:27:09.570][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-08-29 19:27:09.572][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-29 19:27:09.574][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-29 19:27:09.576][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-29 19:27:09.577][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-29 19:27:09.579][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-29 19:27:09.580][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-29 19:27:09.582][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-29 19:27:09.583][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-29 19:27:09.585][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-29 19:27:09.586][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-08-29 19:27:09.588][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-29 19:27:09.589][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-29 19:27:09.591][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-29 19:27:09.592][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-29 19:27:09.592][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-29 19:27:09.592][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-29 19:27:09.592][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-29 19:27:09.592][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-29 19:27:09.594][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-29 19:27:09.595][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-29 19:27:09.596][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-29 19:27:09.598][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-29 19:27:09.599][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-29 19:27:09.600][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-29 19:27:09.602][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-29 19:27:09.603][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-29 19:27:09.604][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-29 19:27:09.605][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-29 19:27:09.607][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-29 19:27:09.608][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-29 19:27:09.609][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-08-29 19:27:09.611][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-29 19:27:09.612][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-08-29 19:27:09.613][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-29 19:27:09.615][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-29 19:27:09.616][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-29 19:27:09.617][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-29 19:27:09.618][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-29 19:27:09.620][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-29 19:27:09.621][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-29 19:27:09.622][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-29 19:27:09.623][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-29 19:27:09.625][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-08-29 19:27:09.626][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-29 19:27:09.628][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-29 19:27:09.629][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-29 19:27:09.630][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-29 19:27:09.630][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-29 19:27:09.630][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-29 19:27:09.630][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-29 19:27:09.630][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-29 19:27:09.632][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-29 19:27:09.633][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-29 19:27:09.634][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-29 19:27:09.635][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-29 19:27:09.637][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-29 19:27:09.638][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-29 19:27:09.639][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-29 19:27:09.641][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-29 19:27:09.642][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-29 19:27:09.643][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-29 19:27:09.644][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-29 19:27:09.646][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-29 19:27:09.647][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-08-29 19:27:09.650][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-29 19:27:09.651][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-08-29 19:27:09.653][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-29 19:27:09.654][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-29 19:27:09.655][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-29 19:27:09.657][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-29 19:27:09.658][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-29 19:27:09.659][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-29 19:27:09.660][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-29 19:27:09.662][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-29 19:27:09.663][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-29 19:27:09.664][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-08-29 19:27:09.665][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-29 19:27:09.667][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-29 19:27:09.668][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-29 19:27:09.669][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-08-29 19:27:09.670][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-29 19:27:09.672][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-29 19:27:09.673][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-29 19:27:09.674][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-29 19:27:09.675][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-29 19:27:09.676][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-29 19:27:09.678][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-29 19:27:09.679][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-29 19:27:09.681][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-29 19:27:09.682][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-29 19:27:09.683][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-29 19:27:09.684][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-29 19:27:09.686][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-08-29 19:27:09.688][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-29 19:27:09.690][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-08-29 19:27:09.691][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-29 19:27:09.693][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-29 19:27:09.694][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-29 19:27:09.695][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-29 19:27:09.697][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-29 19:27:09.698][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-29 19:27:09.699][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-29 19:27:09.700][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-29 19:27:09.702][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-29 19:27:09.703][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-08-29 19:27:09.704][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-29 19:27:09.706][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-29 19:27:09.707][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-29 19:27:09.708][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-08-29 19:27:09.709][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-29 19:27:09.711][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-29 19:27:09.712][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-29 19:27:09.713][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-29 19:27:09.714][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-29 19:27:09.715][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-29 19:27:09.716][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-29 19:27:09.718][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-29 19:27:09.718][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-29 19:27:09.719][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-29 19:27:09.721][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-29 19:27:09.722][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-29 19:27:09.726][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-29 19:27:09.727][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:09.728][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[2025-08-29 19:27:09.729][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:09.731][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:09.732][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:09.733][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:09.734][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:09.735][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:09.736][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:09.737][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:09.739][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:09.740][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[2025-08-29 19:27:09.741][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:09.742][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:09.743][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:09.745][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:09.746][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:09.747][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:09.748][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:09.749][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:09.751][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:09.752][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:09.753][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:09.754][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:09.755][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:09.757][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:09.758][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:09.759][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:09.760][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:09.761][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:09.769][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:09.771][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:09.772][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:09.773][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:09.774][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:09.775][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:09.776][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:09.777][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:09.778][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:09.779][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:09.781][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:09.782][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:09.783][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:09.784][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:09.786][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:09.787][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:09.788][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:09.789][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:09.790][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:09.791][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:09.793][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:09.794][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:09.795][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:09.796][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:09.797][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:09.798][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:09.799][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:09.800][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:09.801][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:09.802][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:09.803][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:09.804][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:09.805][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:09.807][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:09.808][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:09.809][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:09.810][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:09.812][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:09.813][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:09.814][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:09.815][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:09.816][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:09.817][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:09.818][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:09.819][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:09.820][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:09.821][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:09.822][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:09.823][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:09.825][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:09.826][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:09.827][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:09.829][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-08-29 19:27:09.835][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-08-29 19:27:09.837][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-08-29 19:27:09.839][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-08-29 19:27:09.841][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-08-29 19:27:09.843][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-08-29 19:27:09.845][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-08-29 19:27:09.847][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-08-29 19:27:09.849][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-08-29 19:27:09.851][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-08-29 19:27:09.853][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-08-29 19:27:09.855][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-08-29 19:27:09.856][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-08-29 19:27:09.858][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-08-29 19:27:09.860][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-08-29 19:27:09.861][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-08-29 19:27:09.863][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-08-29 19:27:09.865][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-08-29 19:27:09.866][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-08-29 19:27:09.868][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-08-29 19:27:09.870][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-08-29 19:27:09.872][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-08-29 19:27:09.874][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-08-29 19:27:09.875][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-08-29 19:27:09.876][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-08-29 19:27:09.878][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-08-29 19:27:09.879][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-08-29 19:27:09.881][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-08-29 19:27:09.883][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-08-29 19:27:09.884][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-08-29 19:27:09.886][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-08-29 19:27:09.887][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-08-29 19:27:09.889][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-08-29 19:27:09.890][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-08-29 19:27:09.892][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-08-29 19:27:09.894][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-08-29 19:27:09.896][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-08-29 19:27:09.899][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-08-29 19:27:09.901][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-08-29 19:27:09.903][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-08-29 19:27:09.905][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-08-29 19:27:09.907][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-08-29 19:27:09.909][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-08-29 19:27:09.910][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-08-29 19:27:09.912][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-08-29 19:27:09.914][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-08-29 19:27:09.915][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-08-29 19:27:09.917][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-08-29 19:27:09.918][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-08-29 19:27:09.920][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-08-29 19:27:09.922][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-08-29 19:27:09.924][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-08-29 19:27:09.926][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-08-29 19:27:09.928][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-08-29 19:27:09.929][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-08-29 19:27:09.931][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-08-29 19:27:09.933][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-08-29 19:27:09.935][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-08-29 19:27:09.937][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-08-29 19:27:09.938][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-08-29 19:27:09.940][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-08-29 19:27:09.942][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-08-29 19:27:09.944][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-08-29 19:27:09.946][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-08-29 19:27:09.948][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-08-29 19:27:09.950][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-08-29 19:27:09.952][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-08-29 19:27:09.954][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-08-29 19:27:09.955][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-08-29 19:27:09.957][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-08-29 19:27:09.959][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-08-29 19:27:09.961][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-08-29 19:27:09.963][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-08-29 19:27:09.965][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-08-29 19:27:09.967][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-08-29 19:27:09.968][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-08-29 19:27:09.970][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-08-29 19:27:09.972][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-08-29 19:27:09.974][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-08-29 19:27:09.976][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-08-29 19:27:09.978][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-08-29 19:27:09.980][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-08-29 19:27:09.982][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-08-29 19:27:09.990][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-08-29 19:27:09.993][initialize] This is biodb version 1.17.1.
biodb.DEBUG[2025-08-29 19:27:09.997][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-29 19:27:09.998][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:10.000][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:10.001][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:10.003][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[2025-08-29 19:27:10.018][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:10.020][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:10.021][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:10.022][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:10.023][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:10.025][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:10.026][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:10.027][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:10.029][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:10.030][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:10.031][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:10.032][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:10.033][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:10.035][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:10.036][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:10.037][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:10.038][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:10.040][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:10.041][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:10.042][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:10.043][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:10.044][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:10.045][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:10.046][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:10.047][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:10.048][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:10.049][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:10.050][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:10.051][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:10.053][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:10.054][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:10.055][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:10.056][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:10.058][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:10.059][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:10.060][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:10.061][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:10.062][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:10.063][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:10.064][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:10.065][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:10.067][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:10.068][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:10.069][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:10.070][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:10.072][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:10.073][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:10.074][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:10.075][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:10.076][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:10.078][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:10.079][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:10.080][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:10.082][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:10.083][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:10.084][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:10.085][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:10.086][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:10.088][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:10.089][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:10.090][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:10.091][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:10.093][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:10.094][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:10.095][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:10.097][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:10.098][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:10.099][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:10.100][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:10.101][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[2025-08-29 19:27:10.102][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:10.103][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:10.104][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:10.105][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:10.106][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:10.108][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:10.109][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:10.110][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:10.111][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:10.113][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:10.114][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:10.115][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:10.116][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:10.118][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:10.119][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:10.120][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:10.121][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:10.123][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:10.124][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:10.126][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:10.127][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:10.129][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:10.130][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:10.131][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:10.132][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:10.133][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:10.135][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:10.136][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:10.137][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:10.138][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:10.140][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:10.141][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:10.142][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:10.144][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:10.145][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:10.146][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:10.147][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:10.148][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:10.150][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:10.151][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:10.152][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:10.153][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:10.156][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-08-29 19:27:10.170][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-08-29 19:27:10.173][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-29 19:27:10.175][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-08-29 19:27:10.177][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-29 19:27:10.178][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-29 19:27:10.180][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-29 19:27:10.181][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-29 19:27:10.183][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-08-29 19:27:10.184][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-08-29 19:27:10.186][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-08-29 19:27:10.187][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-29 19:27:10.189][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-29 19:27:10.190][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-08-29 19:27:10.191][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-29 19:27:10.193][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-08-29 19:27:10.193][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-08-29 19:27:10.193][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-08-29 19:27:10.193][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-08-29 19:27:10.193][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-08-29 19:27:10.193][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-08-29 19:27:10.193][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-08-29 19:27:10.193][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-08-29 19:27:10.193][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-08-29 19:27:10.193][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-08-29 19:27:10.193][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-08-29 19:27:10.194][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-08-29 19:27:10.196][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-29 19:27:10.196][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-29 19:27:10.196][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-29 19:27:10.197][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-08-29 19:27:10.198][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-29 19:27:10.199][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-29 19:27:10.200][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-29 19:27:10.201][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-29 19:27:10.203][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-29 19:27:10.204][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-29 19:27:10.205][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-29 19:27:10.205][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-08-29 19:27:10.206][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-29 19:27:10.207][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-29 19:27:10.208][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-08-29 19:27:10.210][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-08-29 19:27:10.210][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-08-29 19:27:10.219][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-08-29 19:27:10.221][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-08-29 19:27:10.224][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-08-29 19:27:10.226][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-08-29 19:27:10.228][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-08-29 19:27:10.231][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-08-29 19:27:10.266][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-08-29 19:27:10.299][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-08-29 19:27:10.311][biodb::testThat]
biodb.INFO [2025-08-29 19:27:10.312][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2025-08-29 19:27:10.314][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-29 19:27:10.315][biodb::testThat]
biodb.TRACE[2025-08-29 19:27:10.321][loadFileContents] Loaded 1 files from cache: [1]: "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2025-08-29 19:27:10.324][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-29 19:27:10.328][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-29 19:27:10.338][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:10.339][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:10.341][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:10.360][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:10.362][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:10.363][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:10.365][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:10.375][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:10.377][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:10.379][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:10.381][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:10.383][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:10.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:10.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:10.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:10.407][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-29 19:27:10.409][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-29 19:27:10.410][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:10.411][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:10.448][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-29 19:27:10.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-29 19:27:10.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:10.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:10.454][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-29 19:27:10.456][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-29 19:27:10.457][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:10.458][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:10.460][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-29 19:27:10.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-29 19:27:10.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:10.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:10.465][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-29 19:27:10.466][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-29 19:27:10.467][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:10.468][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:10.470][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-29 19:27:10.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-29 19:27:10.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:10.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:10.476][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-29 19:27:10.477][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-29 19:27:10.479][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:10.480][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:10.481][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-29 19:27:10.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-29 19:27:10.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:10.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:10.487][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-29 19:27:10.488][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-29 19:27:10.489][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:10.491][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:10.493][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-29 19:27:10.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-29 19:27:10.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:10.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:10.498][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-29 19:27:10.500][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:10.501][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:10.502][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:10.504][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-29 19:27:10.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:10.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:10.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:10.510][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:10.511][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:10.512][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:10.514][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:10.515][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:10.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:10.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:10.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:10.522][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-29 19:27:10.523][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-29 19:27:10.525][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:10.526][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:10.528][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-29 19:27:10.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-29 19:27:10.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:10.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:10.547][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-29 19:27:10.549][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-29 19:27:10.550][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:10.551][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:10.553][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-29 19:27:10.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-29 19:27:10.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:10.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:10.559][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-29 19:27:10.560][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-29 19:27:10.562][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:10.563][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:10.565][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-29 19:27:10.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-29 19:27:10.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:10.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:10.570][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:10.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:10.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:10.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:10.576][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:10.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:10.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:10.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:10.581][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:10.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:10.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:10.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:10.587][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:10.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:10.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:10.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:10.593][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:10.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:10.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:10.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:10.598][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:10.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:10.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:10.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:10.603][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:10.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:10.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:10.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:10.658][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:10.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:10.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:10.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:10.665][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:10.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:10.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:10.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:10.670][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:10.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:10.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:10.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:10.676][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2025-08-29 19:27:10.679][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-29 19:27:10.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-29 19:27:10.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:10.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:10.686][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-29 19:27:10.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-29 19:27:10.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:10.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:10.727][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-29 19:27:10.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-29 19:27:10.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:10.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:10.742][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-29 19:27:10.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-29 19:27:10.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:10.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:10.749][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:10.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:10.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:10.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:10.754][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:10.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:10.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:10.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:10.761][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-29 19:27:10.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-29 19:27:10.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:10.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:10.767][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-29 19:27:10.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-29 19:27:10.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:10.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:10.773][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-29 19:27:10.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-29 19:27:10.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:10.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:10.778][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-29 19:27:10.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-29 19:27:10.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:10.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:10.787][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:10.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:10.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:10.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:10.813][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:10.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:10.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:10.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:10.827][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:10.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:10.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:10.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:10.834][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:10.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:10.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:10.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:10.840][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:10.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:10.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:10.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:10.849][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:10.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:10.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:10.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:10.855][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:10.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:10.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:10.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:10.861][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:10.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:10.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:10.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:10.867][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:10.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:10.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:10.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:10.871][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:10.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:10.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:10.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:10.877][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:10.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:10.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:10.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:10.894][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:10.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:10.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:10.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:10.899][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:10.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:10.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:10.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:10.904][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:10.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:10.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:10.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:10.910][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:10.911][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:10.912][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:10.914][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:10.915][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:10.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:10.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:10.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:10.933][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:10.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:10.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:10.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:10.939][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:10.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:10.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:10.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:10.946][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:10.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:10.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:10.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:10.952][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:10.953][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:10.954][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:10.956][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:10.957][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:10.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:10.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:10.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:10.983][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-29 19:27:10.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-29 19:27:10.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:10.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:10.989][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-29 19:27:10.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-29 19:27:10.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:10.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:10.995][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-29 19:27:10.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-29 19:27:10.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:10.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:11.000][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-29 19:27:11.002][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-29 19:27:11.004][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:11.005][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:11.007][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-29 19:27:11.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-29 19:27:11.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:11.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:11.025][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-29 19:27:11.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-29 19:27:11.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:11.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:11.032][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-29 19:27:11.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-29 19:27:11.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:11.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:11.037][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-29 19:27:11.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-29 19:27:11.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:11.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:11.043][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-29 19:27:11.044][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-29 19:27:11.045][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:11.047][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:11.048][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-29 19:27:11.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-29 19:27:11.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:11.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:11.065][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:11.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:11.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:11.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:11.071][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:11.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:11.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:11.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:11.077][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:11.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:11.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:11.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:11.083][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:11.096][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:11.098][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:11.099][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:11.101][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:11.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:11.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:11.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:11.121][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:11.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:11.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:11.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:11.127][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:11.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:11.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:11.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:11.132][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:11.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:11.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:11.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:11.138][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:11.139][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:11.141][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:11.142][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:11.144][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:11.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:11.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:11.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:11.162][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-29 19:27:11.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-29 19:27:11.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:11.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:11.168][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-29 19:27:11.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-29 19:27:11.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:11.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:11.174][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-29 19:27:11.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-29 19:27:11.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:11.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:11.179][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-29 19:27:11.181][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-29 19:27:11.182][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:11.183][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:11.185][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-29 19:27:11.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-29 19:27:11.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:11.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:11.202][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-29 19:27:11.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-29 19:27:11.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:11.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:11.250][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-29 19:27:11.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-29 19:27:11.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:11.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:11.256][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-29 19:27:11.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-29 19:27:11.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:11.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:11.262][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-29 19:27:11.263][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-29 19:27:11.264][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:11.266][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:11.267][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-29 19:27:11.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-29 19:27:11.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:11.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:11.283][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-29 19:27:11.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-29 19:27:11.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:11.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:11.289][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-29 19:27:11.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-29 19:27:11.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:11.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:11.295][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-29 19:27:11.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-29 19:27:11.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:11.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:11.300][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-29 19:27:11.302][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-29 19:27:11.303][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:11.304][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:11.305][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-29 19:27:11.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-29 19:27:11.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:11.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:11.323][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-29 19:27:11.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-29 19:27:11.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:11.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:11.330][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-29 19:27:11.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-29 19:27:11.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:11.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:11.335][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-29 19:27:11.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-29 19:27:11.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:11.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:11.341][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-29 19:27:11.342][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-29 19:27:11.344][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:11.345][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:11.347][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-29 19:27:11.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-29 19:27:11.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:11.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:11.365][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-29 19:27:11.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-29 19:27:11.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:11.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:11.371][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-29 19:27:11.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-29 19:27:11.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:11.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:11.377][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-29 19:27:11.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-29 19:27:11.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:11.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:11.382][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-29 19:27:11.384][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-29 19:27:11.385][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:11.386][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:11.387][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-29 19:27:11.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-29 19:27:11.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:11.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:11.405][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-29 19:27:11.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-29 19:27:11.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:11.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:11.413][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-29 19:27:11.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-29 19:27:11.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:11.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:11.419][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-29 19:27:11.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-29 19:27:11.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:11.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:11.425][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-29 19:27:11.426][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-29 19:27:11.427][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:11.429][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:11.430][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-29 19:27:11.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-29 19:27:11.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:11.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:11.448][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:11.450][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:11.452][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:11.453][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:11.461][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-29 19:27:11.463][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-29 19:27:11.465][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:11.466][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:11.481][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-29 19:27:11.483][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-29 19:27:11.485][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:11.487][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:11.495][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-29 19:27:11.497][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-29 19:27:11.498][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:11.500][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:11.507][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-29 19:27:11.509][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-29 19:27:11.510][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:11.512][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:11.519][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-29 19:27:11.520][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-29 19:27:11.521][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:11.522][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:11.530][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:11.531][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:11.532][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:11.533][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:11.541][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:11.542][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:11.544][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:11.545][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:11.552][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-29 19:27:11.554][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-29 19:27:11.556][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:11.557][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:11.565][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-29 19:27:11.566][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-29 19:27:11.568][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:11.569][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:11.577][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-29 19:27:11.579][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-29 19:27:11.580][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:11.582][ef$get] fields variable is a list.
biodb.INFO [2025-08-29 19:27:11.594][biodb::testThat]
biodb.INFO [2025-08-29 19:27:11.596][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2025-08-29 19:27:11.597][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-29 19:27:11.599][biodb::testThat]
biodb.DEBUG[2025-08-29 19:27:11.617][private$loadEntries] Creating entries from ids [1]: "15440".
biodb.DEBUG[2025-08-29 19:27:11.627][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-29 19:27:11.631][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-29 19:27:11.638][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15440.xml.
biodb.DEBUG[2025-08-29 19:27:11.640][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-29 19:27:11.673][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-29 19:27:11.674][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-29 19:27:11.677][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:11.678][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:11.679][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:11.687][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:11.689][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:11.690][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:11.691][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:11.695][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:11.696][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:11.697][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:11.699][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:11.700][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:11.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:11.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:11.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:11.735][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-29 19:27:11.737][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-29 19:27:11.739][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:11.740][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:11.742][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-29 19:27:11.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-29 19:27:11.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:11.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:11.747][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-29 19:27:11.749][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-29 19:27:11.750][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:11.751][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:11.753][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-29 19:27:11.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-29 19:27:11.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:11.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:11.759][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-29 19:27:11.760][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-29 19:27:11.761][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:11.762][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:11.764][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-29 19:27:11.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-29 19:27:11.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:11.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:11.769][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-29 19:27:11.771][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-29 19:27:11.772][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:11.773][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:11.775][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-29 19:27:11.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-29 19:27:11.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:11.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:11.780][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-29 19:27:11.782][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-29 19:27:11.783][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:11.784][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:11.785][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-29 19:27:11.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-29 19:27:11.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:11.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:11.791][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-29 19:27:11.792][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:11.793][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:11.795][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:11.796][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-29 19:27:11.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:11.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:11.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:11.802][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:11.803][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:11.804][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:11.805][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:11.807][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:11.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:11.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:11.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:11.813][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-29 19:27:11.814][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-29 19:27:11.815][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:11.817][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:11.819][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-29 19:27:11.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-29 19:27:11.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:11.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:11.824][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-29 19:27:11.826][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-29 19:27:11.827][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:11.829][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:11.830][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-29 19:27:11.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-29 19:27:11.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:11.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:11.835][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-29 19:27:11.836][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-29 19:27:11.838][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:11.839][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:11.841][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-29 19:27:11.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-29 19:27:11.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:11.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:11.846][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:11.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:11.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:11.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:11.852][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:11.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:11.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:11.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:11.857][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:11.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:11.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:11.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:11.862][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:11.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:11.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:11.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:11.866][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:11.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:11.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:11.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:11.871][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:11.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:11.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:11.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:11.876][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:11.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:11.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:11.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:11.882][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:11.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:11.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:11.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:11.887][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:11.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:11.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:11.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:11.892][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:11.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:11.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:11.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:11.907][self$createEntryFromContent] Accession numbers: 15440.
biodb.TRACE[2025-08-29 19:27:11.909][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2025-08-29 19:27:11.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2025-08-29 19:27:11.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:11.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:11.914][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2025-08-29 19:27:11.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2025-08-29 19:27:11.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:11.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:11.920][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2025-08-29 19:27:11.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2025-08-29 19:27:11.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:11.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-08-29 19:27:11.936][biodb::testThat]
biodb.INFO [2025-08-29 19:27:11.938][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2025-08-29 19:27:11.939][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-29 19:27:11.940][biodb::testThat]
biodb.TRACE[2025-08-29 19:27:11.945][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-29 19:27:11.947][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-29 19:27:11.948][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:11.949][ef$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:11.951][function(conn, opt)] Testing searchForEntries() with entry "15440" and field "name".
biodb.TRACE[2025-08-29 19:27:11.988][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-29 19:27:11.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-29 19:27:11.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:11.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:11.994][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-29 19:27:11.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-29 19:27:11.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:11.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:12.000][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-29 19:27:12.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-29 19:27:12.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:12.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:12.009][function(conn, opt)] With value "squalene".
sched.DEBUG[2025-08-29 19:27:12.016][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-08-29 19:27:12.047][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-29 19:27:12.052][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-08-29 19:27:12.054][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-08-29 19:27:12.081][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-08-29 19:27:12.136][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-29 19:27:12.140][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-08-29 19:27:12.141][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-29 19:27:12.144][function(conn, opt)] With found IDs [1]: "15440".
biodb.TRACE[2025-08-29 19:27:12.163][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:12.166][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:12.168][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:12.170][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:12.171][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:12.172][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:12.174][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:12.175][ef$get] fields variable is a list.
biodb.INFO [2025-08-29 19:27:12.181][biodb::testThat]
biodb.INFO [2025-08-29 19:27:12.183][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2025-08-29 19:27:12.184][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-29 19:27:12.185][biodb::testThat]
biodb.TRACE[2025-08-29 19:27:12.221][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-29 19:27:12.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-29 19:27:12.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:12.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:12.227][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-29 19:27:12.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-29 19:27:12.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:12.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:12.232][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-29 19:27:12.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-29 19:27:12.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:12.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-08-29 19:27:12.323][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-08-29 19:27:12.328][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-29 19:27:12.332][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-08-29 19:27:12.334][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.INFO [2025-08-29 19:27:12.358][biodb::testThat]
biodb.INFO [2025-08-29 19:27:12.360][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2025-08-29 19:27:12.361][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-29 19:27:12.363][biodb::testThat]
biodb.TRACE[2025-08-29 19:27:12.391][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-29 19:27:12.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-29 19:27:12.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:12.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:12.397][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-29 19:27:12.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-29 19:27:12.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:12.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:12.402][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-29 19:27:12.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-29 19:27:12.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:12.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:12.408][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-29 19:27:12.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-29 19:27:12.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:12.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:12.413][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:12.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:12.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:12.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:12.418][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:12.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:12.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:12.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:12.423][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-29 19:27:12.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-29 19:27:12.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:12.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:12.428][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-29 19:27:12.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-29 19:27:12.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:12.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:12.432][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-29 19:27:12.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-29 19:27:12.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:12.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:12.437][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-29 19:27:12.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-29 19:27:12.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:12.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:12.467][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-29 19:27:12.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-29 19:27:12.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:12.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:12.473][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-29 19:27:12.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-29 19:27:12.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:12.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:12.479][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-29 19:27:12.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-29 19:27:12.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:12.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:12.484][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-29 19:27:12.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-29 19:27:12.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:12.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:12.489][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:12.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:12.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:12.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:12.493][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:12.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:12.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:12.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:12.506][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-29 19:27:12.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-29 19:27:12.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:12.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:12.512][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-29 19:27:12.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-29 19:27:12.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:12.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:12.518][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-29 19:27:12.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-29 19:27:12.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:12.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:12.524][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-29 19:27:12.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-29 19:27:12.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:12.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-08-29 19:27:12.538][biodb::testThat]
biodb.INFO [2025-08-29 19:27:12.539][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2025-08-29 19:27:12.541][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-29 19:27:12.542][biodb::testThat]
biodb.INFO [2025-08-29 19:27:12.555][biodb::testThat]
biodb.INFO [2025-08-29 19:27:12.556][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2025-08-29 19:27:12.558][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-29 19:27:12.559][biodb::testThat]
biodb.INFO [2025-08-29 19:27:12.571][biodb::testThat]
biodb.INFO [2025-08-29 19:27:12.572][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2025-08-29 19:27:12.574][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-29 19:27:12.575][biodb::testThat]
biodb.DEBUG[2025-08-29 19:27:12.581][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
sched.TRACE[2025-08-29 19:27:13.321][try_get_rcurl_content] Using RCurl package for sending request (https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440).
biodb.INFO [2025-08-29 19:27:14.535][biodb::testThat]
biodb.INFO [2025-08-29 19:27:14.536][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2025-08-29 19:27:14.537][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-29 19:27:14.538][biodb::testThat]
biodb.TRACE[2025-08-29 19:27:14.548][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-29 19:27:14.550][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-29 19:27:14.551][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:14.553][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:14.554][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:14.556][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:14.558][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:14.559][ef$get] fields variable is a list.
biodb.INFO [2025-08-29 19:27:14.561][biodb::testThat]
biodb.INFO [2025-08-29 19:27:14.562][biodb::testThat] Running test function  test.searchCompound  (" We can search for a compound ").
biodb.INFO [2025-08-29 19:27:14.563][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-29 19:27:14.564][biodb::testThat]
biodb.TRACE[2025-08-29 19:27:14.580][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-29 19:27:14.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-29 19:27:14.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:14.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:14.585][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-29 19:27:14.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-29 19:27:14.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:14.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:14.590][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-29 19:27:14.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-29 19:27:14.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:14.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-08-29 19:27:14.726][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-08-29 19:27:14.731][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-29 19:27:14.735][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-08-29 19:27:14.736][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-08-29 19:27:14.848][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-08-29 19:27:14.852][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-29 19:27:14.855][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-08-29 19:27:14.857][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.TRACE[2025-08-29 19:27:14.877][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-29 19:27:14.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-29 19:27:14.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:14.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:14.888][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:14.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:14.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:14.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:14.893][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:14.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:14.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:14.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:14.899][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:14.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:14.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:14.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:14.905][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:14.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:14.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:14.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:14.910][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:14.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:14.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:14.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-08-29 19:27:14.923][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-08-29 19:27:14.926][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-29 19:27:14.929][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-08-29 19:27:14.931][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-29 19:27:14.934][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:14.935][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:14.936][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:14.943][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:14.944][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:14.946][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:14.947][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:14.948][private$loadEntries] Creating entries from ids [1]: "192288".
biodb.DEBUG[2025-08-29 19:27:15.022][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-29 19:27:15.025][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-29 19:27:15.030][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/192288.xml.
biodb.DEBUG[2025-08-29 19:27:15.032][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-29 19:27:15.034][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-29 19:27:15.035][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-29 19:27:15.037][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:15.039][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:15.040][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:15.048][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:15.049][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:15.051][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:15.052][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:15.055][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:15.056][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:15.057][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.058][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.060][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:15.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:15.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.065][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-29 19:27:15.067][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-29 19:27:15.068][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.069][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.071][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-29 19:27:15.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-29 19:27:15.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.077][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-29 19:27:15.078][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-29 19:27:15.079][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.081][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.083][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-29 19:27:15.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-29 19:27:15.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.088][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-29 19:27:15.089][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-29 19:27:15.091][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.092][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.093][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-29 19:27:15.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-29 19:27:15.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.099][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-29 19:27:15.100][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-29 19:27:15.101][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.103][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.105][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-29 19:27:15.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-29 19:27:15.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.111][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-29 19:27:15.113][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-29 19:27:15.114][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.116][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.118][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-29 19:27:15.119][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:15.121][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.122][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.124][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-29 19:27:15.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:15.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.130][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:15.132][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:15.133][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.134][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.136][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:15.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:15.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.140][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-29 19:27:15.142][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-29 19:27:15.143][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.144][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.146][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-29 19:27:15.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-29 19:27:15.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.151][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-29 19:27:15.160][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-29 19:27:15.162][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.163][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.165][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-29 19:27:15.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-29 19:27:15.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.170][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-29 19:27:15.172][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-29 19:27:15.173][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.174][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.176][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-29 19:27:15.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-29 19:27:15.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.181][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:15.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:15.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.187][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:15.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:15.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.191][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:15.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:15.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.197][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:15.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:15.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.202][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:15.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:15.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.207][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:15.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:15.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.212][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:15.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:15.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.217][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:15.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:15.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.222][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:15.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:15.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.227][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:15.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:15.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:15.233][self$createEntryFromContent] Accession numbers: 192288.
biodb.TRACE[2025-08-29 19:27:15.246][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:15.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:15.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.252][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:15.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:15.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.257][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:15.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:15.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-08-29 19:27:15.263][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-08-29 19:27:15.267][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-29 19:27:15.270][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-08-29 19:27:15.271][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-29 19:27:15.291][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:15.292][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:15.293][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:15.301][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:15.302][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:15.304][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:15.305][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:15.307][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:15.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:15.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.312][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:15.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:15.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.317][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:15.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:15.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:15.330][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:15.331][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:15.333][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:15.341][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:15.342][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:15.344][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:15.345][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:15.347][private$loadEntries] Creating entries from ids [1]: "209892".
biodb.DEBUG[2025-08-29 19:27:15.348][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-29 19:27:15.351][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-29 19:27:15.355][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/209892.xml.
biodb.DEBUG[2025-08-29 19:27:15.356][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-29 19:27:15.358][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-29 19:27:15.360][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-29 19:27:15.362][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:15.363][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:15.365][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:15.372][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:15.374][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:15.375][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:15.377][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:15.381][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:15.383][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:15.384][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.386][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.388][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:15.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:15.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.394][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-29 19:27:15.395][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-29 19:27:15.397][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.398][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.400][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-29 19:27:15.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-29 19:27:15.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.406][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-29 19:27:15.407][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-29 19:27:15.409][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.410][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.411][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-29 19:27:15.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-29 19:27:15.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.416][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-29 19:27:15.418][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-29 19:27:15.418][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.420][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.421][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-29 19:27:15.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-29 19:27:15.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.427][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-29 19:27:15.428][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-29 19:27:15.430][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.431][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.433][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-29 19:27:15.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-29 19:27:15.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.439][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-29 19:27:15.440][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-29 19:27:15.441][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.443][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.444][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-29 19:27:15.446][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:15.447][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.448][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.449][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-29 19:27:15.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:15.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.455][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:15.456][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:15.457][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.459][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.460][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:15.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:15.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.466][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-29 19:27:15.468][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-29 19:27:15.469][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.470][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.472][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-29 19:27:15.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-29 19:27:15.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.477][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-29 19:27:15.479][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-29 19:27:15.480][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.481][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.483][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-29 19:27:15.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-29 19:27:15.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.489][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-29 19:27:15.490][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-29 19:27:15.492][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.493][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.495][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-29 19:27:15.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-29 19:27:15.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.501][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:15.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:15.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.506][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:15.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:15.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.520][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:15.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:15.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.525][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:15.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:15.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.530][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:15.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:15.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.535][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:15.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:15.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.540][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:15.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:15.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.546][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:15.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:15.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.550][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:15.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:15.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.555][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:15.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:15.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:15.561][self$createEntryFromContent] Accession numbers: 209892.
biodb.TRACE[2025-08-29 19:27:15.562][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:15.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:15.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.567][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:15.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:15.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.572][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:15.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:15.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-08-29 19:27:15.604][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-08-29 19:27:15.608][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-29 19:27:15.612][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-08-29 19:27:15.614][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-29 19:27:15.618][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:15.619][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:15.620][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:15.627][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:15.629][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:15.630][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:15.631][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:15.633][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:15.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:15.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.639][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:15.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:15.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.644][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:15.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:15.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:15.649][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:15.651][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:15.652][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:15.659][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:15.660][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:15.661][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:15.662][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:15.664][private$loadEntries] Creating entries from ids [1]: "26747".
biodb.DEBUG[2025-08-29 19:27:15.665][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-29 19:27:15.667][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-29 19:27:15.671][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26747.xml.
biodb.DEBUG[2025-08-29 19:27:15.672][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-29 19:27:15.674][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-29 19:27:15.676][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-29 19:27:15.678][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:15.679][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:15.680][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:15.687][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:15.688][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:15.690][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:15.691][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:15.701][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:15.703][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:15.704][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.706][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.707][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:15.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:15.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.713][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-29 19:27:15.714][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-29 19:27:15.715][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.716][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.718][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-29 19:27:15.719][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-29 19:27:15.720][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.721][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.723][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-29 19:27:15.724][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-29 19:27:15.726][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.727][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.728][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-29 19:27:15.730][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-29 19:27:15.731][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.733][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.734][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-29 19:27:15.736][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-29 19:27:15.737][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.738][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.740][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-29 19:27:15.741][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:15.742][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.743][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.745][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:15.746][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:15.747][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.749][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.750][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-29 19:27:15.752][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-29 19:27:15.753][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.754][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.756][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-29 19:27:15.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-29 19:27:15.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.761][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-29 19:27:15.762][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-29 19:27:15.763][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.764][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.766][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-29 19:27:15.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-29 19:27:15.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.771][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-29 19:27:15.773][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-29 19:27:15.774][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.775][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.777][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:15.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:15.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.782][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:15.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:15.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.787][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:15.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:15.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.792][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:15.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:15.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.798][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:15.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:15.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.803][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:15.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:15.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.807][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:15.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:15.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.813][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:15.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:15.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.818][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:15.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:15.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.823][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:15.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:15.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:15.827][self$createEntryFromContent] Accession numbers: 26747.
biodb.TRACE[2025-08-29 19:27:15.828][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:15.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:15.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.833][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:15.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:15.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.837][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:15.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:15.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.841][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:15.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:15.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.847][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:15.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:15.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:15.853][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:15.854][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:15.855][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:15.870][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:15.871][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:15.872][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:15.874][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:15.875][private$loadEntries] Creating entries from ids [1]: "59285".
biodb.DEBUG[2025-08-29 19:27:15.877][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-29 19:27:15.879][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-29 19:27:15.883][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/59285.xml.
biodb.DEBUG[2025-08-29 19:27:15.884][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-29 19:27:15.886][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-29 19:27:15.887][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-29 19:27:15.889][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:15.890][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:15.891][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:15.898][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:15.899][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:15.900][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:15.901][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:15.905][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:15.906][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:15.907][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.908][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.909][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:15.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:15.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.913][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-29 19:27:15.915][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-29 19:27:15.916][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.917][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.919][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-29 19:27:15.920][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-29 19:27:15.921][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.922][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.924][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-29 19:27:15.926][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-29 19:27:15.927][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.929][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.930][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-29 19:27:15.931][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-29 19:27:15.932][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.934][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.936][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-29 19:27:15.937][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-29 19:27:15.938][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.939][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.941][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-29 19:27:15.942][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:15.943][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.944][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.945][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:15.947][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:15.948][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.949][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.951][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-29 19:27:15.952][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-29 19:27:15.953][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.954][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.957][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-29 19:27:15.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-29 19:27:15.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.961][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-29 19:27:15.963][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-29 19:27:15.964][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.966][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.967][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-29 19:27:15.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-29 19:27:15.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.971][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-29 19:27:15.972][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-29 19:27:15.973][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.974][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.975][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:15.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:15.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.980][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:15.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:15.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.985][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:15.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:15.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.990][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:15.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:15.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:15.995][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:15.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:15.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:15.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.000][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:16.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:16.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.005][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:16.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:16.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.010][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:16.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:16.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.015][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:16.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:16.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.021][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:16.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:16.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:16.033][self$createEntryFromContent] Accession numbers: 59285.
biodb.TRACE[2025-08-29 19:27:16.035][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:16.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:16.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.041][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:16.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:16.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.046][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:16.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:16.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.051][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:16.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:16.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.056][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:16.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:16.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:16.061][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:16.062][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:16.063][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:16.070][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:16.072][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:16.073][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:16.074][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:16.076][private$loadEntries] Creating entries from ids [1]: "75174".
biodb.DEBUG[2025-08-29 19:27:16.077][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-29 19:27:16.078][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-29 19:27:16.096][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75174.xml.
biodb.DEBUG[2025-08-29 19:27:16.097][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-29 19:27:16.098][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-29 19:27:16.099][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-29 19:27:16.101][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:16.102][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:16.103][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:16.111][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:16.112][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:16.114][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:16.115][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[2025-08-29 19:27:16.118][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:16.120][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:16.121][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.122][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.124][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:16.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:16.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.129][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-29 19:27:16.131][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-29 19:27:16.132][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.133][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.135][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-29 19:27:16.136][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-29 19:27:16.137][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.139][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.141][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-29 19:27:16.142][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-29 19:27:16.143][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.145][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.146][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-29 19:27:16.148][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-29 19:27:16.149][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.151][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.152][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-29 19:27:16.154][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-29 19:27:16.155][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.156][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.158][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-29 19:27:16.160][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:16.161][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.162][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.164][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:16.165][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:16.167][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.168][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.170][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-29 19:27:16.171][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-29 19:27:16.172][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.173][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.175][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-29 19:27:16.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-29 19:27:16.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.180][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-29 19:27:16.181][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-29 19:27:16.182][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.183][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.185][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-29 19:27:16.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-29 19:27:16.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.190][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-29 19:27:16.191][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-29 19:27:16.193][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.194][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.196][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:16.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:16.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.202][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:16.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:16.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.207][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:16.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:16.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.220][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:16.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:16.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.226][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:16.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:16.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.231][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:16.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:16.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.237][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:16.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:16.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.242][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:16.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:16.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.247][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:16.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:16.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.251][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:16.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:16.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:16.255][self$createEntryFromContent] Accession numbers: 75174.
biodb.TRACE[2025-08-29 19:27:16.256][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:16.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:16.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.261][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:16.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:16.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.265][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:16.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:16.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.269][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:16.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:16.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.273][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:16.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:16.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:16.278][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:16.279][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:16.280][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:16.287][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:16.288][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:16.289][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:16.290][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:16.291][private$loadEntries] Creating entries from ids [1]: "15441".
biodb.DEBUG[2025-08-29 19:27:16.292][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-29 19:27:16.294][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-29 19:27:16.299][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15441.xml.
biodb.DEBUG[2025-08-29 19:27:16.300][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-29 19:27:16.302][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-29 19:27:16.303][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-29 19:27:16.305][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:16.307][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:16.308][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:16.316][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:16.317][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:16.318][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:16.319][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:16.322][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:16.324][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:16.325][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.326][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.327][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:16.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:16.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.333][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-29 19:27:16.334][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-29 19:27:16.336][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.337][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.339][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-29 19:27:16.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-29 19:27:16.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.344][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-29 19:27:16.346][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-29 19:27:16.347][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.348][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.350][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-29 19:27:16.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-29 19:27:16.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.354][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-29 19:27:16.355][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-29 19:27:16.356][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.357][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.359][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-29 19:27:16.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-29 19:27:16.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.364][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-29 19:27:16.365][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-29 19:27:16.366][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.367][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.369][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-29 19:27:16.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-29 19:27:16.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.374][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-29 19:27:16.375][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-29 19:27:16.382][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.384][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.385][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-29 19:27:16.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-29 19:27:16.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.390][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-29 19:27:16.392][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:16.393][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.394][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.395][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-29 19:27:16.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:16.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.399][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:16.401][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:16.402][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.403][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.405][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:16.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:16.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.409][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-29 19:27:16.410][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-29 19:27:16.411][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.413][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.415][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-29 19:27:16.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-29 19:27:16.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.420][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-29 19:27:16.422][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-29 19:27:16.423][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.424][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.425][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-29 19:27:16.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-29 19:27:16.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.430][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-29 19:27:16.431][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-29 19:27:16.433][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.434][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.435][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-29 19:27:16.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-29 19:27:16.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.440][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:16.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:16.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.445][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:16.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:16.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.450][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:16.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:16.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.456][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:16.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:16.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.461][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:16.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:16.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.466][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:16.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:16.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.471][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:16.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:16.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.476][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:16.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:16.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.480][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:16.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:16.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.485][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:16.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:16.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:16.490][self$createEntryFromContent] Accession numbers: 15441.
biodb.TRACE[2025-08-29 19:27:16.492][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:16.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:16.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.497][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:16.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:16.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.502][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:16.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:16.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:16.507][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:16.508][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:16.510][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:16.517][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:16.518][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:16.519][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:16.520][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[2025-08-29 19:27:16.521][private$loadEntries] Creating entries from ids [1]: "15442".
biodb.DEBUG[2025-08-29 19:27:16.523][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-29 19:27:16.524][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-29 19:27:16.529][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15442.xml.
biodb.DEBUG[2025-08-29 19:27:16.531][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-29 19:27:16.533][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-29 19:27:16.535][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-29 19:27:16.537][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:16.538][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:16.539][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:16.553][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:16.555][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:16.556][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:16.558][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:16.562][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:16.564][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:16.565][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.567][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.568][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:16.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:16.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.572][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-29 19:27:16.574][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-29 19:27:16.575][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.576][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.578][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-29 19:27:16.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-29 19:27:16.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.583][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-29 19:27:16.584][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-29 19:27:16.585][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.586][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.588][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-29 19:27:16.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-29 19:27:16.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.592][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-29 19:27:16.593][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-29 19:27:16.595][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.595][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.597][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-29 19:27:16.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-29 19:27:16.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.602][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-29 19:27:16.603][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-29 19:27:16.605][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.606][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.607][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-29 19:27:16.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-29 19:27:16.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.612][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-29 19:27:16.614][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-29 19:27:16.615][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.616][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.617][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-29 19:27:16.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-29 19:27:16.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.622][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-29 19:27:16.624][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:16.625][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.626][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.627][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-29 19:27:16.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:16.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.632][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:16.633][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:16.634][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.635][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.636][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:16.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:16.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.641][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-29 19:27:16.642][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-29 19:27:16.644][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.644][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.646][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-29 19:27:16.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-29 19:27:16.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.651][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-29 19:27:16.652][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-29 19:27:16.653][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.654][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.655][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-29 19:27:16.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-29 19:27:16.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.660][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-29 19:27:16.661][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-29 19:27:16.663][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.664][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.666][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-29 19:27:16.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-29 19:27:16.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.671][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:16.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:16.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.677][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:16.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:16.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.681][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:16.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:16.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.686][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:16.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:16.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.691][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:16.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:16.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.696][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:16.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:16.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.708][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:16.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:16.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.713][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:16.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:16.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.718][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:16.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:16.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.723][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:16.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:16.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:16.728][self$createEntryFromContent] Accession numbers: 15442.
biodb.TRACE[2025-08-29 19:27:16.729][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:16.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:16.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.734][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:16.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:16.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.739][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:16.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:16.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:16.744][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:16.745][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:16.746][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:16.753][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:16.755][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:16.756][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:16.757][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:16.758][private$loadEntries] Creating entries from ids [1]: "57310".
biodb.DEBUG[2025-08-29 19:27:16.759][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-29 19:27:16.761][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-29 19:27:16.765][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/57310.xml.
biodb.DEBUG[2025-08-29 19:27:16.767][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-29 19:27:16.768][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-29 19:27:16.770][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-29 19:27:16.772][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:16.773][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:16.774][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:16.781][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:16.783][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:16.784][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:16.785][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:16.789][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:16.790][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:16.791][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.792][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.794][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:16.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:16.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.798][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-29 19:27:16.799][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-29 19:27:16.801][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.801][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.803][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-29 19:27:16.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-29 19:27:16.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.807][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-29 19:27:16.808][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-29 19:27:16.810][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.811][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.812][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-29 19:27:16.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-29 19:27:16.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.817][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-29 19:27:16.818][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-29 19:27:16.820][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.821][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.822][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-29 19:27:16.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-29 19:27:16.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.827][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-29 19:27:16.829][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-29 19:27:16.830][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.831][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.832][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-29 19:27:16.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-29 19:27:16.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.838][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-29 19:27:16.839][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-29 19:27:16.840][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.842][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.843][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-29 19:27:16.845][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:16.846][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.847][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.849][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-29 19:27:16.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:16.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.853][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:16.854][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:16.855][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.856][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.858][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:16.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:16.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.863][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-29 19:27:16.871][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-29 19:27:16.872][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.874][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.876][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-29 19:27:16.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-29 19:27:16.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.881][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-29 19:27:16.882][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-29 19:27:16.883][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.884][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.885][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-29 19:27:16.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-29 19:27:16.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.890][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-29 19:27:16.891][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-29 19:27:16.892][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.893][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.895][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-29 19:27:16.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-29 19:27:16.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.900][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:16.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:16.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.905][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:16.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:16.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.911][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:16.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:16.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.917][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:16.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:16.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.922][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:16.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:16.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.928][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:16.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:16.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.933][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:16.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:16.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.939][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:16.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:16.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.944][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:16.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:16.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.949][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:16.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:16.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:16.954][self$createEntryFromContent] Accession numbers: 57310.
biodb.TRACE[2025-08-29 19:27:16.955][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:16.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:16.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.960][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:16.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:16.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:16.966][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:16.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:16.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:16.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:16.971][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:16.972][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:16.973][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:16.980][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:16.982][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:16.983][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:16.984][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:16.985][private$loadEntries] Creating entries from ids [1]: "66216".
biodb.DEBUG[2025-08-29 19:27:16.986][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-29 19:27:16.988][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-29 19:27:16.993][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66216.xml.
biodb.DEBUG[2025-08-29 19:27:16.995][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-29 19:27:16.997][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-29 19:27:16.998][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-29 19:27:17.000][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:17.001][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:17.002][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:17.009][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:17.010][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:17.011][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:17.012][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:17.015][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:17.016][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:17.017][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.019][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.020][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:17.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:17.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.025][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-29 19:27:17.027][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-29 19:27:17.028][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.029][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.030][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-29 19:27:17.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-29 19:27:17.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.054][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-29 19:27:17.056][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-29 19:27:17.057][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.058][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.060][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-29 19:27:17.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-29 19:27:17.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.065][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-29 19:27:17.067][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-29 19:27:17.068][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.069][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.071][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-29 19:27:17.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-29 19:27:17.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.075][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-29 19:27:17.076][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-29 19:27:17.077][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.078][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.080][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-29 19:27:17.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-29 19:27:17.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.085][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-29 19:27:17.086][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-29 19:27:17.088][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.089][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.090][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-29 19:27:17.092][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:17.093][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.094][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.096][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-29 19:27:17.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:17.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.101][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:17.102][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:17.103][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.104][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.106][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:17.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:17.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.110][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-29 19:27:17.111][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-29 19:27:17.113][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.114][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.116][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-29 19:27:17.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-29 19:27:17.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.121][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-29 19:27:17.122][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-29 19:27:17.123][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.125][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.126][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-29 19:27:17.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-29 19:27:17.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.132][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-29 19:27:17.133][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-29 19:27:17.134][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.135][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.137][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-29 19:27:17.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-29 19:27:17.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.141][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:17.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:17.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.147][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:17.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:17.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.152][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:17.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:17.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.157][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:17.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:17.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.162][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:17.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:17.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.167][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:17.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:17.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.172][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:17.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:17.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.177][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:17.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:17.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.182][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:17.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:17.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.187][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:17.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:17.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:17.191][self$createEntryFromContent] Accession numbers: 66216.
biodb.TRACE[2025-08-29 19:27:17.193][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:17.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:17.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.197][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:17.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:17.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.203][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:17.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:17.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:17.215][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:17.217][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:17.219][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:17.226][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:17.228][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:17.230][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:17.231][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:17.232][private$loadEntries] Creating entries from ids [1]: "70860".
biodb.DEBUG[2025-08-29 19:27:17.233][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-29 19:27:17.235][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-29 19:27:17.239][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70860.xml.
biodb.DEBUG[2025-08-29 19:27:17.240][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-29 19:27:17.242][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-29 19:27:17.243][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-29 19:27:17.246][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:17.247][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:17.248][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:17.256][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:17.257][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:17.258][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:17.260][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:17.263][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:17.264][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:17.265][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.266][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.268][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:17.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:17.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.273][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-29 19:27:17.274][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-29 19:27:17.276][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.276][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.278][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-29 19:27:17.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-29 19:27:17.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.282][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-29 19:27:17.283][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-29 19:27:17.284][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.285][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.287][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-29 19:27:17.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-29 19:27:17.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.291][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-29 19:27:17.293][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-29 19:27:17.294][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.295][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.296][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-29 19:27:17.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-29 19:27:17.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.301][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-29 19:27:17.302][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-29 19:27:17.303][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.304][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.306][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-29 19:27:17.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-29 19:27:17.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.310][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-29 19:27:17.312][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-29 19:27:17.313][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.314][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.316][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-29 19:27:17.317][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:17.318][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.319][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.321][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-29 19:27:17.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:17.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.326][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:17.328][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:17.329][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.330][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.332][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:17.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:17.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.337][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-29 19:27:17.338][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-29 19:27:17.339][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.340][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.342][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-29 19:27:17.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-29 19:27:17.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.347][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-29 19:27:17.348][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-29 19:27:17.350][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.351][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.352][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-29 19:27:17.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-29 19:27:17.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.357][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-29 19:27:17.359][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-29 19:27:17.360][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.361][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.363][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-29 19:27:17.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-29 19:27:17.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.368][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:17.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:17.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.374][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:17.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:17.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.385][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:17.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:17.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.391][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:17.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:17.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.396][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:17.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:17.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.401][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:17.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:17.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.406][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:17.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:17.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.411][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:17.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:17.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.416][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:17.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:17.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.422][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:17.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:17.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:17.427][self$createEntryFromContent] Accession numbers: 70860.
biodb.TRACE[2025-08-29 19:27:17.428][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:17.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:17.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.434][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:17.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:17.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.440][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:17.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:17.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:17.445][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:17.447][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:17.448][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:17.455][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:17.457][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:17.458][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:17.459][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:17.460][private$loadEntries] Creating entries from ids [1]: "70861".
biodb.DEBUG[2025-08-29 19:27:17.461][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-29 19:27:17.463][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-29 19:27:17.468][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70861.xml.
biodb.DEBUG[2025-08-29 19:27:17.469][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-29 19:27:17.470][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-29 19:27:17.472][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-29 19:27:17.474][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:17.475][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:17.477][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:17.484][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:17.486][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:17.487][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:17.488][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:17.491][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:17.493][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:17.494][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.495][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.497][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:17.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:17.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.503][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-29 19:27:17.504][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-29 19:27:17.505][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.506][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.508][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-29 19:27:17.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-29 19:27:17.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.513][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-29 19:27:17.515][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-29 19:27:17.516][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.517][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.519][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-29 19:27:17.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-29 19:27:17.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.524][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-29 19:27:17.525][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-29 19:27:17.527][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.528][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.529][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-29 19:27:17.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-29 19:27:17.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.535][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-29 19:27:17.536][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-29 19:27:17.537][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.538][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.540][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-29 19:27:17.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-29 19:27:17.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.546][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-29 19:27:17.547][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-29 19:27:17.548][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.550][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.552][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-29 19:27:17.553][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:17.555][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.556][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.559][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-29 19:27:17.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:17.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.574][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:17.576][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:17.577][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.578][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.580][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:17.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:17.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.586][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-29 19:27:17.587][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-29 19:27:17.588][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.589][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.590][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-29 19:27:17.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-29 19:27:17.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.596][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-29 19:27:17.597][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-29 19:27:17.599][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.600][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.602][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-29 19:27:17.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-29 19:27:17.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.607][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-29 19:27:17.609][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-29 19:27:17.610][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.611][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.613][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-29 19:27:17.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-29 19:27:17.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.618][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:17.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:17.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.623][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:17.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:17.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.628][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:17.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:17.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.634][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:17.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:17.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.638][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:17.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:17.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.642][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:17.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:17.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.647][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:17.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:17.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.651][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:17.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:17.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.655][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:17.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:17.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.660][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:17.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:17.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:17.665][self$createEntryFromContent] Accession numbers: 70861.
biodb.TRACE[2025-08-29 19:27:17.666][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:17.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:17.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.671][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:17.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:17.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.675][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:17.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:17.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:17.680][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:17.681][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:17.682][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:17.689][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:17.690][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:17.692][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:17.693][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:17.694][private$loadEntries] Creating entries from ids [1]: "78662".
biodb.DEBUG[2025-08-29 19:27:17.695][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-29 19:27:17.697][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-29 19:27:17.702][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/78662.xml.
biodb.DEBUG[2025-08-29 19:27:17.703][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-29 19:27:17.705][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-29 19:27:17.706][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-29 19:27:17.709][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:17.710][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:17.711][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:17.718][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:17.720][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:17.721][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:17.722][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:17.726][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:17.727][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:17.728][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.729][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.731][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:17.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:17.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.743][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-29 19:27:17.745][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-29 19:27:17.746][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.748][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.749][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-29 19:27:17.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-29 19:27:17.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.754][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-29 19:27:17.756][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-29 19:27:17.757][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.759][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.760][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-29 19:27:17.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-29 19:27:17.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.765][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-29 19:27:17.767][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-29 19:27:17.768][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.769][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.771][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-29 19:27:17.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-29 19:27:17.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.777][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-29 19:27:17.778][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-29 19:27:17.780][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.781][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.783][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-29 19:27:17.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-29 19:27:17.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.788][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-29 19:27:17.789][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-29 19:27:17.790][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.791][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.793][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-29 19:27:17.794][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:17.795][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.796][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.798][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-29 19:27:17.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:17.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.803][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:17.805][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:17.806][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.807][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.809][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:17.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:17.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.814][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-29 19:27:17.815][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-29 19:27:17.816][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.817][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.819][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-29 19:27:17.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-29 19:27:17.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.825][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-29 19:27:17.826][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-29 19:27:17.827][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.829][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.831][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-29 19:27:17.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-29 19:27:17.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.835][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-29 19:27:17.836][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-29 19:27:17.838][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.839][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.840][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-29 19:27:17.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-29 19:27:17.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.846][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:17.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:17.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.850][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:17.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:17.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.856][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:17.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:17.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.860][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:17.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:17.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.864][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:17.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:17.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.869][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:17.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:17.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.873][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:17.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:17.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.879][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:17.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:17.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.884][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:17.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:17.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.889][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:17.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:17.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:17.894][self$createEntryFromContent] Accession numbers: 78662.
biodb.TRACE[2025-08-29 19:27:17.896][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:17.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:17.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.908][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:17.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:17.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.913][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:17.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:17.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:17.918][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:17.919][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:17.920][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:17.928][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:17.929][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:17.931][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:17.932][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:17.934][private$loadEntries] Creating entries from ids [1]: "85084".
biodb.DEBUG[2025-08-29 19:27:17.935][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-29 19:27:17.938][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-29 19:27:17.941][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85084.xml.
biodb.DEBUG[2025-08-29 19:27:17.943][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-29 19:27:17.944][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-29 19:27:17.946][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-29 19:27:17.948][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:17.950][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:17.950][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:17.958][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:17.960][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:17.961][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:17.963][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:17.966][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:17.967][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:17.968][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.969][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.971][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:17.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:17.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.976][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-29 19:27:17.977][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-29 19:27:17.979][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.980][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.982][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-29 19:27:17.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-29 19:27:17.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.987][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-29 19:27:17.988][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-29 19:27:17.989][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.990][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.992][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-29 19:27:17.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-29 19:27:17.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:17.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:17.998][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-29 19:27:17.999][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-29 19:27:18.001][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.002][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.003][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-29 19:27:18.005][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-29 19:27:18.006][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.007][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.008][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-29 19:27:18.010][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-29 19:27:18.011][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.012][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.013][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-29 19:27:18.014][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:18.015][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.017][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.018][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-29 19:27:18.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:18.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.024][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:18.025][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:18.026][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.027][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.029][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:18.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:18.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.034][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-29 19:27:18.036][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-29 19:27:18.037][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.037][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.039][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-29 19:27:18.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-29 19:27:18.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.044][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-29 19:27:18.046][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-29 19:27:18.047][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.048][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.050][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-29 19:27:18.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-29 19:27:18.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.056][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-29 19:27:18.057][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-29 19:27:18.058][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.059][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.061][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:18.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:18.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.066][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:18.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:18.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.071][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:18.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:18.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.085][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:18.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:18.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.091][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:18.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:18.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.096][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:18.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:18.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.102][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:18.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:18.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.108][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:18.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:18.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.114][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:18.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:18.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.119][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:18.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:18.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:18.123][self$createEntryFromContent] Accession numbers: 85084.
biodb.TRACE[2025-08-29 19:27:18.125][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:18.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:18.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.130][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:18.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:18.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.135][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:18.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:18.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:18.140][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:18.142][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:18.143][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:18.151][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:18.152][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:18.153][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:18.155][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:18.156][private$loadEntries] Creating entries from ids [1]: "85086".
biodb.DEBUG[2025-08-29 19:27:18.158][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-29 19:27:18.159][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-29 19:27:18.163][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85086.xml.
biodb.DEBUG[2025-08-29 19:27:18.164][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-29 19:27:18.166][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-29 19:27:18.168][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-29 19:27:18.170][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:18.171][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:18.172][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:18.180][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:18.182][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:18.183][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:18.184][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:18.187][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:18.189][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:18.190][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.192][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.194][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:18.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:18.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.198][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-29 19:27:18.200][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-29 19:27:18.201][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.203][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.205][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-29 19:27:18.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-29 19:27:18.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.211][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-29 19:27:18.212][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-29 19:27:18.214][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.215][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.217][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-29 19:27:18.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-29 19:27:18.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.222][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-29 19:27:18.224][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-29 19:27:18.225][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.226][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.228][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-29 19:27:18.229][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-29 19:27:18.230][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.231][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.233][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-29 19:27:18.234][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-29 19:27:18.235][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.236][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.238][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-29 19:27:18.239][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:18.240][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.241][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.243][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-29 19:27:18.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:18.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.249][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:18.250][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:18.251][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.252][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.263][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:18.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:18.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.270][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-29 19:27:18.271][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-29 19:27:18.273][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.274][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.276][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-29 19:27:18.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-29 19:27:18.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.280][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-29 19:27:18.281][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-29 19:27:18.282][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.284][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.285][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-29 19:27:18.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-29 19:27:18.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.291][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-29 19:27:18.292][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-29 19:27:18.293][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.295][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.296][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:18.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:18.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.300][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:18.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:18.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.304][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:18.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:18.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.309][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:18.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:18.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.314][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:18.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:18.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.318][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:18.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:18.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.324][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:18.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:18.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.329][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:18.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:18.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.335][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:18.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:18.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.340][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:18.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:18.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:18.345][self$createEntryFromContent] Accession numbers: 85086.
biodb.TRACE[2025-08-29 19:27:18.346][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:18.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:18.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.351][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:18.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:18.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.356][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:18.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:18.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:18.360][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:18.361][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:18.362][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:18.369][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:18.370][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:18.371][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:18.372][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[2025-08-29 19:27:18.373][private$loadEntries] Creating entries from ids [1]: "88123".
biodb.DEBUG[2025-08-29 19:27:18.374][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-29 19:27:18.376][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-29 19:27:18.380][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/88123.xml.
biodb.DEBUG[2025-08-29 19:27:18.382][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-29 19:27:18.383][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-29 19:27:18.385][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-29 19:27:18.388][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:18.389][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:18.390][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:18.398][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:18.400][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:18.401][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:18.402][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:18.404][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:18.406][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:18.407][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.409][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.410][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:18.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:18.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.415][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-29 19:27:18.416][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-29 19:27:18.417][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.418][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.420][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-29 19:27:18.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-29 19:27:18.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.432][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-29 19:27:18.434][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-29 19:27:18.435][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.437][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.438][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-29 19:27:18.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-29 19:27:18.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.444][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-29 19:27:18.445][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-29 19:27:18.446][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.448][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.449][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-29 19:27:18.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-29 19:27:18.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.455][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-29 19:27:18.456][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-29 19:27:18.457][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.458][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.460][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-29 19:27:18.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-29 19:27:18.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.477][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-29 19:27:18.479][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-29 19:27:18.480][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.482][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.483][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-29 19:27:18.485][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:18.486][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.487][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.494][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-29 19:27:18.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:18.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.505][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:18.507][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:18.508][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.509][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.510][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:18.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:18.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.516][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-29 19:27:18.518][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-29 19:27:18.519][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.520][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.522][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-29 19:27:18.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-29 19:27:18.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.527][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-29 19:27:18.529][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-29 19:27:18.530][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.531][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.533][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-29 19:27:18.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-29 19:27:18.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.538][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-29 19:27:18.539][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-29 19:27:18.540][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.542][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.544][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-29 19:27:18.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-29 19:27:18.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.549][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:18.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:18.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.554][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:18.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:18.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.558][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:18.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:18.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.563][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:18.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:18.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.567][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:18.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:18.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.572][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:18.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:18.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.578][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:18.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:18.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.583][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:18.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:18.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.588][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:18.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:18.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.592][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:18.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:18.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:18.596][self$createEntryFromContent] Accession numbers: 88123.
biodb.TRACE[2025-08-29 19:27:18.598][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:18.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:18.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.602][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:18.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:18.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.607][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:18.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:18.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:18.620][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:18.622][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:18.624][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:18.633][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:18.634][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:18.635][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:18.637][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:18.639][private$loadEntries] Creating entries from ids [1]: "134117".
biodb.DEBUG[2025-08-29 19:27:18.640][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-29 19:27:18.642][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-29 19:27:18.646][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/134117.xml.
biodb.DEBUG[2025-08-29 19:27:18.648][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-29 19:27:18.650][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-29 19:27:18.652][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-29 19:27:18.654][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:18.655][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:18.656][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:18.663][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:18.664][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:18.666][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:18.667][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:18.670][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:18.671][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:18.672][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.674][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.675][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:18.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:18.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.681][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-29 19:27:18.682][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-29 19:27:18.683][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.684][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.685][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-29 19:27:18.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-29 19:27:18.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.690][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-29 19:27:18.691][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-29 19:27:18.693][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.694][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.696][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-29 19:27:18.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-29 19:27:18.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.701][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-29 19:27:18.703][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-29 19:27:18.704][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.704][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.706][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-29 19:27:18.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-29 19:27:18.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.710][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-29 19:27:18.712][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-29 19:27:18.713][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.714][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.715][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-29 19:27:18.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-29 19:27:18.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.720][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-29 19:27:18.721][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-29 19:27:18.723][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.724][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.726][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-29 19:27:18.727][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:18.728][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.730][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.731][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-29 19:27:18.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:18.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.737][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:18.738][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:18.739][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.741][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.743][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:18.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:18.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.748][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-29 19:27:18.749][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-29 19:27:18.750][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.752][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.754][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-29 19:27:18.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-29 19:27:18.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.759][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-29 19:27:18.760][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-29 19:27:18.761][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.762][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.763][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-29 19:27:18.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-29 19:27:18.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.768][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-29 19:27:18.770][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-29 19:27:18.771][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.772][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.773][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-29 19:27:18.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-29 19:27:18.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.778][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:18.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:18.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.783][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:18.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:18.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.795][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:18.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:18.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.801][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:18.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:18.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.806][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:18.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:18.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.812][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:18.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:18.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.817][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:18.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:18.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.823][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:18.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:18.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.828][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:18.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:18.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.833][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:18.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:18.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:18.838][self$createEntryFromContent] Accession numbers: 134117.
biodb.TRACE[2025-08-29 19:27:18.840][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:18.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:18.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.845][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:18.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:18.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.850][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:18.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:18.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:18.854][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:18.856][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:18.857][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:18.863][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:18.865][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:18.866][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:18.867][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[2025-08-29 19:27:18.869][private$loadEntries] Creating entries from ids [1]: "138307".
biodb.DEBUG[2025-08-29 19:27:18.870][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-29 19:27:18.871][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-29 19:27:18.876][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/138307.xml.
biodb.DEBUG[2025-08-29 19:27:18.877][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-29 19:27:18.878][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-29 19:27:18.880][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-29 19:27:18.882][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:18.883][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:18.884][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:18.891][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:18.893][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:18.894][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:18.895][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[2025-08-29 19:27:18.899][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:18.900][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:18.901][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.902][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.903][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:18.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:18.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.908][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-29 19:27:18.909][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-29 19:27:18.911][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.912][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.914][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-29 19:27:18.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-29 19:27:18.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.919][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-29 19:27:18.920][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-29 19:27:18.921][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.922][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.924][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-29 19:27:18.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-29 19:27:18.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.930][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-29 19:27:18.931][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-29 19:27:18.932][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.933][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.935][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-29 19:27:18.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-29 19:27:18.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.940][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-29 19:27:18.941][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-29 19:27:18.943][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.944][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.946][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-29 19:27:18.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-29 19:27:18.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.951][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-29 19:27:18.952][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-29 19:27:18.954][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.955][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.956][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-29 19:27:18.966][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:18.967][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.969][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.971][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-29 19:27:18.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:18.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.976][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:18.977][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:18.978][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.979][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.981][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:18.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:18.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.986][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-29 19:27:18.988][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-29 19:27:18.989][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.990][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.992][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-29 19:27:18.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-29 19:27:18.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:18.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:18.997][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-29 19:27:18.998][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-29 19:27:18.999][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.000][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.001][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-29 19:27:19.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-29 19:27:19.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.006][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-29 19:27:19.007][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-29 19:27:19.008][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.009][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.011][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-29 19:27:19.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-29 19:27:19.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.017][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:19.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:19.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.021][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:19.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:19.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.026][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:19.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:19.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.031][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:19.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:19.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.036][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:19.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:19.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.041][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:19.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:19.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.046][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:19.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:19.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.052][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:19.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:19.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.056][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:19.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:19.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.062][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:19.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:19.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:19.066][self$createEntryFromContent] Accession numbers: 138307.
biodb.TRACE[2025-08-29 19:27:19.068][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:19.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:19.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.073][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:19.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:19.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.079][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:19.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:19.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:19.084][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:19.085][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:19.086][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:19.093][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:19.094][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:19.096][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:19.097][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:19.098][private$loadEntries] Creating entries from ids [1]: "176803".
biodb.DEBUG[2025-08-29 19:27:19.099][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-29 19:27:19.101][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-29 19:27:19.111][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176803.xml.
biodb.DEBUG[2025-08-29 19:27:19.112][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-29 19:27:19.114][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-29 19:27:19.115][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-29 19:27:19.117][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:19.118][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:19.121][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:19.129][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:19.131][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:19.132][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:19.134][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:19.145][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:19.148][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:19.150][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.151][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.153][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:19.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:19.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.159][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-29 19:27:19.160][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-29 19:27:19.161][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.162][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.164][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-29 19:27:19.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-29 19:27:19.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.169][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-29 19:27:19.170][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-29 19:27:19.171][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.172][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.174][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-29 19:27:19.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-29 19:27:19.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.179][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-29 19:27:19.180][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-29 19:27:19.182][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.183][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.185][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-29 19:27:19.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-29 19:27:19.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.190][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-29 19:27:19.191][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-29 19:27:19.193][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.194][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.195][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-29 19:27:19.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-29 19:27:19.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.200][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-29 19:27:19.201][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-29 19:27:19.202][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.203][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.204][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-29 19:27:19.205][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:19.206][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.207][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.208][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-29 19:27:19.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:19.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.213][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:19.214][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:19.215][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.217][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.218][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:19.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:19.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.223][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-29 19:27:19.224][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-29 19:27:19.225][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.227][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.228][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-29 19:27:19.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-29 19:27:19.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.234][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-29 19:27:19.235][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-29 19:27:19.236][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.238][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.239][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-29 19:27:19.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-29 19:27:19.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.244][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-29 19:27:19.245][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-29 19:27:19.247][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.248][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.249][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-29 19:27:19.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-29 19:27:19.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.254][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:19.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:19.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.259][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:19.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:19.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.263][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:19.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:19.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.269][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:19.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:19.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.276][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:19.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:19.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.282][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:19.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:19.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.287][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:19.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:19.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.292][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:19.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:19.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.298][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:19.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:19.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.311][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:19.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:19.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:19.318][self$createEntryFromContent] Accession numbers: 176803.
biodb.TRACE[2025-08-29 19:27:19.319][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:19.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:19.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.324][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:19.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:19.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.329][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:19.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:19.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:19.334][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:19.335][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:19.336][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:19.344][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:19.345][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:19.346][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:19.348][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:19.349][private$loadEntries] Creating entries from ids [1]: "176962".
biodb.DEBUG[2025-08-29 19:27:19.351][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-29 19:27:19.352][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-29 19:27:19.357][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176962.xml.
biodb.DEBUG[2025-08-29 19:27:19.358][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-29 19:27:19.360][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-29 19:27:19.361][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-29 19:27:19.363][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:19.365][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:19.366][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:19.373][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:19.375][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:19.376][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:19.377][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:19.380][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:19.381][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:19.383][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.384][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.386][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:19.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:19.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.391][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-29 19:27:19.392][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-29 19:27:19.393][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.394][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.396][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-29 19:27:19.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-29 19:27:19.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.401][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-29 19:27:19.402][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-29 19:27:19.403][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.404][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.406][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-29 19:27:19.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-29 19:27:19.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.410][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-29 19:27:19.412][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-29 19:27:19.413][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.414][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.415][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-29 19:27:19.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-29 19:27:19.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.421][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-29 19:27:19.422][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-29 19:27:19.424][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.425][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.427][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-29 19:27:19.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-29 19:27:19.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.431][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-29 19:27:19.432][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-29 19:27:19.433][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.434][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.436][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-29 19:27:19.437][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:19.438][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.439][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.440][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-29 19:27:19.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:19.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.446][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:19.447][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:19.448][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.449][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.451][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:19.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:19.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.456][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-29 19:27:19.457][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-29 19:27:19.458][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.459][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.460][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-29 19:27:19.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-29 19:27:19.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.465][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-29 19:27:19.466][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-29 19:27:19.474][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.475][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.477][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-29 19:27:19.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-29 19:27:19.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.492][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-29 19:27:19.493][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-29 19:27:19.495][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.496][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.497][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-29 19:27:19.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-29 19:27:19.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.502][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:19.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:19.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.507][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:19.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:19.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.511][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:19.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:19.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.516][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:19.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:19.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.521][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:19.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:19.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.526][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:19.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:19.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.532][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:19.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:19.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.537][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:19.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:19.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.543][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:19.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:19.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.548][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:19.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:19.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:19.556][self$createEntryFromContent] Accession numbers: 176962.
biodb.TRACE[2025-08-29 19:27:19.558][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:19.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:19.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.563][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:19.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:19.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.568][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:19.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:19.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:19.573][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:19.574][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:19.575][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:19.582][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:19.583][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:19.584][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:19.586][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:19.587][private$loadEntries] Creating entries from ids [1]: "198655".
biodb.DEBUG[2025-08-29 19:27:19.588][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-29 19:27:19.589][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-29 19:27:19.593][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/198655.xml.
biodb.DEBUG[2025-08-29 19:27:19.595][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-29 19:27:19.597][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-29 19:27:19.598][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-29 19:27:19.600][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:19.601][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:19.602][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:19.610][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:19.612][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:19.613][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:19.615][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:19.618][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:19.621][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:19.624][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.625][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.627][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:19.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:19.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.633][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-29 19:27:19.634][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-29 19:27:19.636][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.636][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.638][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-29 19:27:19.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-29 19:27:19.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.643][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-29 19:27:19.644][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-29 19:27:19.645][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.646][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.648][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-29 19:27:19.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-29 19:27:19.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.653][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-29 19:27:19.655][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-29 19:27:19.656][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.657][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.666][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-29 19:27:19.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-29 19:27:19.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.671][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-29 19:27:19.672][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-29 19:27:19.674][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.675][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.677][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-29 19:27:19.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-29 19:27:19.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.682][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-29 19:27:19.683][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-29 19:27:19.684][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.686][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.687][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-29 19:27:19.688][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:19.689][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.690][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.691][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-29 19:27:19.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:19.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.696][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:19.698][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:19.698][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.700][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.701][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:19.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:19.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.707][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-29 19:27:19.711][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-29 19:27:19.713][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.714][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.716][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-29 19:27:19.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-29 19:27:19.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.722][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-29 19:27:19.723][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-29 19:27:19.725][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.731][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.753][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-29 19:27:19.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-29 19:27:19.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.771][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-29 19:27:19.774][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-29 19:27:19.781][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.788][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.790][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-29 19:27:19.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-29 19:27:19.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.796][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:19.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:19.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.803][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:19.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:19.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.808][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:19.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:19.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.814][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:19.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:19.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.819][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:19.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:19.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.825][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:19.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:19.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.830][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:19.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:19.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.836][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:19.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:19.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.840][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:19.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:19.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.845][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:19.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:19.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:19.850][self$createEntryFromContent] Accession numbers: 198655.
biodb.TRACE[2025-08-29 19:27:19.851][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:19.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:19.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.856][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:19.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:19.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.860][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:19.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:19.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:19.865][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:19.866][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:19.867][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:19.875][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:19.877][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:19.878][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:19.879][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:19.881][private$loadEntries] Creating entries from ids [1]: "215045".
biodb.DEBUG[2025-08-29 19:27:19.890][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-29 19:27:19.892][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-29 19:27:19.896][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/215045.xml.
biodb.DEBUG[2025-08-29 19:27:19.899][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-29 19:27:19.901][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-29 19:27:19.902][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-29 19:27:19.904][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:19.906][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:19.907][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:19.914][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:19.916][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:19.917][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:19.918][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:19.921][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:19.923][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:19.924][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.926][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.927][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:19.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:19.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.932][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-29 19:27:19.933][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-29 19:27:19.934][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.936][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.937][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-29 19:27:19.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-29 19:27:19.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.942][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-29 19:27:19.943][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-29 19:27:19.945][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.946][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.948][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-29 19:27:19.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-29 19:27:19.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.953][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-29 19:27:19.954][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-29 19:27:19.955][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.957][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.958][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-29 19:27:19.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-29 19:27:19.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.963][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-29 19:27:19.964][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-29 19:27:19.965][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.967][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.968][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-29 19:27:19.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-29 19:27:19.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.974][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-29 19:27:19.975][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-29 19:27:19.976][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.977][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.979][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-29 19:27:19.980][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:19.981][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.982][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.984][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-29 19:27:19.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:19.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.989][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:19.990][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:19.992][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.993][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.994][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:19.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:19.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:19.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:19.999][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-29 19:27:20.000][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-29 19:27:20.002][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:20.003][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:20.005][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-29 19:27:20.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-29 19:27:20.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:20.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:20.010][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-29 19:27:20.011][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-29 19:27:20.012][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:20.014][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:20.015][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-29 19:27:20.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-29 19:27:20.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:20.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:20.024][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-29 19:27:20.026][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-29 19:27:20.027][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:20.028][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:20.030][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-29 19:27:20.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-29 19:27:20.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:20.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:20.036][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:20.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:20.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:20.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:20.042][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:20.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:20.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:20.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:20.047][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:20.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:20.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:20.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:20.053][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:20.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:20.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:20.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:20.066][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:20.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:20.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:20.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:20.072][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:20.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:20.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:20.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:20.077][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:20.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:20.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:20.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:20.083][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:20.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:20.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:20.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:20.089][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:20.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:20.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:20.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:20.094][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:20.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:20.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:20.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:20.100][self$createEntryFromContent] Accession numbers: 215045.
biodb.TRACE[2025-08-29 19:27:20.102][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:20.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:20.107][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:20.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:20.115][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:20.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-08-29 19:27:20.149][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-08-29 19:27:20.152][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-29 19:27:20.156][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-08-29 19:27:20.158][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-29 19:27:20.162][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:20.164][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:20.165][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:20.172][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:20.174][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:20.175][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:20.176][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:20.178][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:20.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:20.183][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:20.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:20.187][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:20.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:20.193][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:20.194][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:20.195][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:20.203][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:20.204][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:20.206][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:20.207][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:20.208][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:20.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:20.219][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:20.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:20.225][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:20.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:20.231][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:20.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:20.238][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:20.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:20.244][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:20.245][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:20.246][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:20.254][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:20.256][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:20.257][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:20.266][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:20.269][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:20.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:20.276][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:20.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:20.282][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:20.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:20.287][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:20.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:20.294][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:20.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:20.299][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:20.301][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:20.302][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:20.310][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:20.311][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:20.313][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:20.314][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:20.316][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:20.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:20.326][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:20.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:20.332][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:20.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:20.338][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:20.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:20.348][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:20.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:20.353][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:20.355][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:20.356][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:20.364][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:20.366][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:20.367][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:20.368][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:20.370][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:20.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:20.375][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:20.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:20.381][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:20.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:20.387][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:20.388][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:20.390][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:20.397][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:20.398][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:20.399][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:20.400][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:20.402][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:20.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:20.406][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:20.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:20.412][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:20.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:20.417][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:20.418][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:20.419][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:20.427][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:20.429][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:20.430][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:20.431][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:20.433][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:20.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:20.443][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:20.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:20.448][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:20.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:20.457][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:20.459][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:20.460][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:20.477][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:20.478][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:20.479][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:20.481][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:20.482][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:20.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:20.487][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:20.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:20.492][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:20.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:20.497][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:20.498][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:20.499][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:20.505][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:20.506][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:20.508][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:20.509][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:20.511][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:20.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:20.516][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:20.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:20.521][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:20.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:20.527][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:20.528][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:20.529][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:20.536][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:20.538][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:20.539][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:20.540][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:20.542][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:20.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:20.546][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:20.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:20.551][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:20.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:20.555][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:20.556][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:20.558][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:20.565][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:20.568][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:20.569][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:20.571][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:20.572][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:20.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:20.578][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:20.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:20.584][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:20.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:20.590][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:20.591][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:20.592][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:20.600][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:20.601][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:20.602][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:20.604][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:20.606][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:20.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:20.611][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:20.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:20.616][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:20.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:20.622][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:20.623][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:20.625][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:20.632][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:20.633][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:20.634][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:20.635][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:20.637][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:20.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:20.642][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:20.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:20.654][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:20.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:20.660][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:20.661][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:20.662][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:20.670][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:20.671][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:20.672][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:20.673][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:20.675][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:20.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:20.680][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:20.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:20.686][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:20.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:20.693][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:20.694][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:20.695][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:20.702][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:20.704][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:20.706][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:20.707][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:20.710][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:20.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:20.716][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:20.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:20.720][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:20.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:20.725][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:20.726][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:20.727][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:20.735][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:20.736][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:20.737][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:20.738][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:20.740][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:20.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:20.746][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:20.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:20.751][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:20.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:20.755][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:20.756][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:20.758][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:20.765][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:20.767][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:20.768][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:20.769][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:20.770][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:20.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:20.776][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:20.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:20.781][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:20.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:20.787][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:20.788][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:20.789][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:20.797][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:20.798][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:20.799][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:20.800][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:20.801][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:20.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:20.811][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:20.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:20.817][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:20.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:20.822][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:20.825][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:20.827][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:20.845][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:20.846][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:20.848][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:20.849][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:20.851][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:20.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:20.856][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:20.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:20.861][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:20.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:20.866][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:20.867][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:20.868][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:20.876][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:20.877][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:20.879][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:20.880][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:20.882][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:20.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:20.887][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:20.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:20.891][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:20.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:20.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:20.920][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:20.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:20.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:20.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:20.930][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:20.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:20.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:20.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:20.936][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:20.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:20.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:20.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:20.941][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:20.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:20.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:20.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:20.947][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:20.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:20.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:20.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-08-29 19:27:20.984][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-08-29 19:27:20.988][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-29 19:27:20.991][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/63dc67d905e130c19900bd338bad7ba9.content.
sched.DEBUG[2025-08-29 19:27:20.992][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-08-29 19:27:20.996][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39125*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-08-29 19:27:21.000][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-29 19:27:21.003][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/287cac4c6e727656d926f26e3952924c.content.
sched.DEBUG[2025-08-29 19:27:21.004][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-29 19:27:21.007][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:21.008][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:21.008][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:21.022][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:21.024][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:21.025][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:21.027][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:21.029][private$loadEntries] Creating entries from ids [1]: "4648".
biodb.DEBUG[2025-08-29 19:27:21.030][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-29 19:27:21.032][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-29 19:27:21.037][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4648.xml.
biodb.DEBUG[2025-08-29 19:27:21.041][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-29 19:27:21.043][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-29 19:27:21.045][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-29 19:27:21.047][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:21.048][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:21.049][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:21.057][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:21.058][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:21.060][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:21.061][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:21.064][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:21.066][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:21.067][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.068][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:21.069][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:21.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:21.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:21.075][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-29 19:27:21.076][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-29 19:27:21.077][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.079][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:21.081][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-29 19:27:21.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-29 19:27:21.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:21.089][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-29 19:27:21.091][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-29 19:27:21.092][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.093][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:21.095][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-29 19:27:21.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-29 19:27:21.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:21.100][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-29 19:27:21.102][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-29 19:27:21.103][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.106][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:21.109][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-29 19:27:21.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-29 19:27:21.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:21.115][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-29 19:27:21.116][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-29 19:27:21.118][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.119][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:21.120][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-29 19:27:21.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-29 19:27:21.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:21.126][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-29 19:27:21.127][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-29 19:27:21.128][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.129][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:21.131][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-29 19:27:21.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-29 19:27:21.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:21.137][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-29 19:27:21.138][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:21.139][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.141][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:21.142][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-29 19:27:21.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:21.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:21.147][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:21.148][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:21.149][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.150][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:21.152][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:21.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:21.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:21.162][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-29 19:27:21.164][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-29 19:27:21.165][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.166][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:21.168][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-29 19:27:21.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-29 19:27:21.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:21.174][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-29 19:27:21.177][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-29 19:27:21.178][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.180][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:21.182][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-29 19:27:21.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-29 19:27:21.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:21.187][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-29 19:27:21.189][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-29 19:27:21.190][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.191][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:21.193][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-29 19:27:21.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-29 19:27:21.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:21.198][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:21.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:21.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:21.203][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:21.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:21.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:21.213][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:21.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:21.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:21.219][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:21.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:21.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:21.224][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:21.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:21.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:21.233][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:21.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:21.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:21.238][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:21.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:21.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:21.243][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:21.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:21.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:21.252][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:21.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:21.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:21.257][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:21.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:21.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:21.261][self$createEntryFromContent] Accession numbers: 4648.
biodb.TRACE[2025-08-29 19:27:21.263][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:21.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:21.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:21.268][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:21.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:21.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:21.273][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:21.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:21.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:21.278][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:21.279][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:21.280][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:21.287][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:21.288][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:21.289][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:21.290][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:21.292][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:21.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:21.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:21.303][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:21.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:21.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:21.308][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:21.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:21.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:21.313][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:21.315][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:21.318][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:21.327][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:21.329][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:21.331][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:21.332][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:21.334][private$loadEntries] Creating entries from ids [1]: "62447".
biodb.DEBUG[2025-08-29 19:27:21.335][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-29 19:27:21.337][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-29 19:27:21.342][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62447.xml.
biodb.DEBUG[2025-08-29 19:27:21.343][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-29 19:27:21.345][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-29 19:27:21.347][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-29 19:27:21.349][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:21.350][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:21.352][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:21.359][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:21.361][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:21.362][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:21.367][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:21.371][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:21.372][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:21.374][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.375][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:21.376][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:21.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:21.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:21.382][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-29 19:27:21.386][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-29 19:27:21.389][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.391][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:21.393][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-29 19:27:21.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-29 19:27:21.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:21.399][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-29 19:27:21.400][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-29 19:27:21.401][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.402][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:21.404][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-29 19:27:21.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-29 19:27:21.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:21.410][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-29 19:27:21.419][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-29 19:27:21.420][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.422][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:21.424][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-29 19:27:21.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-29 19:27:21.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:21.430][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-29 19:27:21.431][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-29 19:27:21.432][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.434][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:21.435][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-29 19:27:21.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-29 19:27:21.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:21.445][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-29 19:27:21.446][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-29 19:27:21.448][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.449][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:21.450][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-29 19:27:21.452][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:21.453][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.455][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:21.458][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-29 19:27:21.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:21.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:21.465][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:21.467][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:21.468][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.469][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:21.471][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:21.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:21.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:21.476][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-29 19:27:21.478][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-29 19:27:21.479][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.480][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:21.481][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-29 19:27:21.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-29 19:27:21.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:21.487][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-29 19:27:21.488][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-29 19:27:21.489][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.491][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:21.492][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-29 19:27:21.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-29 19:27:21.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:21.497][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-29 19:27:21.499][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-29 19:27:21.500][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.501][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:21.503][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-29 19:27:21.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-29 19:27:21.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:21.509][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:21.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:21.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:21.517][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:21.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:21.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:21.522][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:21.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:21.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:21.530][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:21.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:21.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:21.537][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:21.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:21.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:21.542][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:21.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:21.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:21.547][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:21.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:21.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:21.552][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:21.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:21.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:21.557][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:21.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:21.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:21.563][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:21.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:21.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:21.568][self$createEntryFromContent] Accession numbers: 62447.
biodb.TRACE[2025-08-29 19:27:21.570][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:21.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:21.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:21.575][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:21.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:21.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:21.580][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:21.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:21.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-08-29 19:27:21.623][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-08-29 19:27:21.627][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-29 19:27:21.631][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-08-29 19:27:21.633][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-29 19:27:21.637][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:21.638][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:21.639][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:21.647][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:21.648][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:21.649][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:21.651][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:21.652][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:21.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:21.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:21.658][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:21.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:21.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:21.664][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:21.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:21.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:21.669][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:21.674][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:21.676][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:21.683][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:21.685][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:21.686][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:21.687][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:21.689][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:21.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:21.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:21.699][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:21.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:21.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:21.704][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:21.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:21.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:21.710][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:21.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:21.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:21.715][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:21.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:21.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:21.720][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:21.721][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:21.722][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:21.729][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:21.731][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:21.732][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:21.733][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:21.735][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:21.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:21.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:21.741][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:21.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:21.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:21.746][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:21.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:21.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:21.751][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:21.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:21.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:21.755][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:21.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:21.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:21.766][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:21.767][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:21.769][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:21.776][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:21.777][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:21.780][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:21.783][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:21.784][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:21.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:21.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:21.790][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:21.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:21.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:21.796][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:21.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:21.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:21.801][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:21.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:21.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:21.816][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:21.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:21.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:21.823][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:21.825][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:21.826][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:21.833][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:21.834][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:21.836][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:21.842][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:21.844][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:21.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:21.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:21.850][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:21.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:21.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:21.855][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:21.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:21.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:21.864][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:21.865][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:21.866][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:21.874][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:21.875][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:21.877][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:21.878][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:21.880][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:21.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:21.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:21.886][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:21.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:21.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:21.891][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:21.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:21.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:21.896][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:21.897][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:21.898][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:21.905][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:21.907][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:21.908][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:21.909][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:21.911][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:21.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:21.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:21.916][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:21.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:21.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:21.926][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:21.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:21.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:21.933][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:21.934][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:21.935][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:21.942][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:21.943][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:21.944][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:21.946][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:21.947][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:21.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:21.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:21.952][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:21.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:21.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:21.957][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:21.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:21.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:21.963][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:21.966][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:21.967][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:21.974][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:21.976][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:21.977][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:21.978][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:21.979][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:21.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:21.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:21.985][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:21.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:21.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:21.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:21.990][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:21.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:21.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:22.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:22.003][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:22.004][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:22.005][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:22.013][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:22.020][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:22.022][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:22.023][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:22.025][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:22.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:22.031][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:22.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:22.035][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:22.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:22.041][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:22.042][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:22.044][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:22.051][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:22.053][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:22.054][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:22.055][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:22.056][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:22.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:22.061][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:22.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:22.066][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:22.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:22.072][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:22.073][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:22.074][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:22.082][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:22.084][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:22.085][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:22.089][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:22.091][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:22.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:22.097][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:22.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:22.103][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:22.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:22.116][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:22.117][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:22.118][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:22.125][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:22.126][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:22.128][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:22.129][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:22.131][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:22.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:22.137][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:22.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:22.142][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:22.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:22.146][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:22.147][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:22.148][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:22.156][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:22.157][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:22.158][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:22.159][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:22.160][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:22.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:22.165][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:22.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:22.171][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:22.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:22.181][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:22.182][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:22.183][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:22.192][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:22.193][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:22.195][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:22.200][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:22.202][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:22.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:22.208][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:22.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:22.214][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:22.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:22.224][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:22.225][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:22.227][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:22.235][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:22.236][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:22.237][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:22.238][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:22.240][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:22.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:22.245][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:22.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:22.250][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:22.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:22.255][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:22.259][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:22.260][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:22.268][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:22.270][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:22.271][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:22.273][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:22.276][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:22.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:22.283][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:22.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:22.289][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:22.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:22.294][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:22.296][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:22.297][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:22.305][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:22.307][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:22.308][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:22.309][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:22.310][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:22.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:22.315][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:22.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:22.320][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:22.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:22.325][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:22.326][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:22.327][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:22.335][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:22.339][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:22.340][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:22.341][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:22.343][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:22.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:22.349][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:22.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:22.356][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:22.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:22.362][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:22.363][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:22.365][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:22.373][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:22.374][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:22.376][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:22.377][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:22.379][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:22.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:22.384][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:22.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:22.389][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:22.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-08-29 19:27:22.435][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-08-29 19:27:22.440][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-29 19:27:22.444][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-08-29 19:27:22.445][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-29 19:27:22.449][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:22.451][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:22.452][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:22.459][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:22.460][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:22.462][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:22.463][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:22.465][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:22.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:22.470][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:22.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:22.475][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:22.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:22.481][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:22.482][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:22.484][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:22.492][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:22.493][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:22.494][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:22.496][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:22.497][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:22.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:22.502][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:22.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:22.507][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:22.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:22.515][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:22.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:22.520][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:22.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:22.527][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:22.528][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:22.532][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:22.538][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:22.540][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:22.541][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:22.542][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:22.544][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:22.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:22.549][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:22.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:22.554][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:22.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:22.560][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:22.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:22.565][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:22.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:22.571][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:22.572][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:22.573][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:22.581][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:22.582][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:22.583][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:22.584][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:22.586][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:22.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:22.591][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:22.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:22.600][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:22.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:22.606][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:22.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:22.622][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:22.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:22.630][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:22.631][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:22.632][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:22.639][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:22.641][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:22.642][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:22.643][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:22.645][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:22.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:22.649][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:22.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:22.654][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:22.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:22.658][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:22.659][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:22.660][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:22.668][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:22.669][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:22.670][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:22.672][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:22.674][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:22.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:22.679][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:22.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:22.686][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:22.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:22.691][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:22.692][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:22.694][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:22.707][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:22.709][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:22.710][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:22.712][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:22.714][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:22.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:22.720][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:22.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:22.726][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:22.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:22.731][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:22.732][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:22.733][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:22.741][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:22.742][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:22.744][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:22.745][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:22.747][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:22.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:22.753][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:22.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:22.758][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:22.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:22.763][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:22.764][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:22.765][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:22.779][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:22.780][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:22.782][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:22.783][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:22.785][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:22.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:22.794][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:22.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:22.800][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:22.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:22.805][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:22.806][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:22.808][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:22.815][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:22.824][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:22.825][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:22.827][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:22.829][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:22.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:22.836][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:22.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:22.842][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:22.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:22.846][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:22.847][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:22.848][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:22.855][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:22.857][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:22.863][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:22.864][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:22.866][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:22.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:22.873][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:22.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:22.880][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:22.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:22.888][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:22.889][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:22.890][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:22.897][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:22.898][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:22.899][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:22.900][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:22.901][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:22.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:22.906][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:22.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:22.911][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:22.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:22.917][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:22.918][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:22.919][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:22.926][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:22.927][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:22.928][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:22.930][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:22.931][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:22.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:22.935][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:22.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:22.940][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:22.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:22.944][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:22.945][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:22.946][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:22.958][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:22.959][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:22.961][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:22.962][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:22.964][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:22.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:22.970][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:22.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:22.976][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:22.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:22.980][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:22.981][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:22.982][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:22.989][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:22.990][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:22.992][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:22.993][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:22.994][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:22.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:22.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:22.999][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:23.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:23.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:23.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:23.003][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:23.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:23.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:23.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:23.017][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:23.018][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:23.019][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:23.026][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:23.028][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:23.029][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:23.031][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:23.033][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:23.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:23.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:23.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:23.039][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:23.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:23.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:23.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:23.043][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:23.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:23.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:23.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:23.052][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:23.053][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:23.055][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:23.063][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:23.065][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:23.067][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:23.070][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:23.072][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:23.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:23.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:23.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:23.077][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:23.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:23.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:23.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:23.083][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:23.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:23.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:23.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:23.089][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:23.090][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:23.091][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:23.099][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:23.101][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:23.102][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:23.104][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:23.106][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:23.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:23.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:23.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:23.112][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:23.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:23.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:23.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:23.116][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:23.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:23.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:23.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:23.121][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:23.122][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:23.123][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:23.131][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:23.132][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:23.134][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:23.135][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:23.137][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:23.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:23.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:23.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:23.145][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:23.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:23.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:23.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:23.151][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:23.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:23.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:23.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:23.159][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:23.162][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:23.163][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:23.171][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:23.173][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:23.174][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:23.175][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:23.176][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:23.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:23.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:23.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:23.181][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:23.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:23.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:23.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:23.186][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:23.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:23.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:23.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:23.222][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-08-29 19:27:23.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-08-29 19:27:23.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:23.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-08-29 19:27:23.243][biodb::testThat]
biodb.INFO [2025-08-29 19:27:23.244][biodb::testThat] Running test function  test_annotateMzValues_input_vector  (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2025-08-29 19:27:23.247][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-29 19:27:23.250][biodb::testThat]
biodb.TRACE[2025-08-29 19:27:23.254][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-29 19:27:23.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-29 19:27:23.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:23.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:23.259][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:23.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:23.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:23.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:23.264][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:23.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:23.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:23.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:23.269][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:23.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:23.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:23.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:23.275][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:23.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:23.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:23.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:23.284][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:23.285][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:23.286][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:23.293][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:23.294][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:23.295][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:23.297][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-08-29 19:27:23.301][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-08-29 19:27:23.305][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-29 19:27:23.307][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-08-29 19:27:23.309][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-29 19:27:23.312][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:23.314][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:23.315][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:23.326][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:23.328][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:23.329][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:23.331][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:23.333][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:23.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:23.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:23.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:23.341][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:23.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:23.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:23.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:23.348][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:23.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:23.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:23.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-08-29 19:27:23.355][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-08-29 19:27:23.358][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-29 19:27:23.361][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-08-29 19:27:23.362][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-29 19:27:23.366][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:23.367][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:23.368][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:23.376][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:23.378][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:23.379][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:23.381][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:23.382][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:23.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:23.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:23.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:23.388][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:23.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:23.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:23.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:23.393][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:23.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:23.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:23.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:23.398][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:23.399][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:23.400][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:23.408][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:23.410][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:23.411][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:23.422][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:23.425][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:23.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:23.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:23.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:23.434][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:23.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:23.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:23.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:23.441][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:23.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:23.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:23.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:23.447][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-29 19:27:23.450][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:23.451][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:23.452][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:23.460][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:23.461][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:23.463][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:23.465][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:23.466][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:23.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:23.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:23.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:23.471][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:23.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:23.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:23.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:23.476][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-29 19:27:23.477][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-29 19:27:23.479][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-29 19:27:23.480][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-29 19:27:23.481][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-29 19:27:23.483][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:23.484][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:23.485][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:23.486][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:23.488][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:23.489][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:23.490][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:23.491][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:23.492][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-29 19:27:23.494][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-29 19:27:23.496][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:23.497][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:23.498][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:23.500][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:23.501][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-29 19:27:23.503][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:23.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:23.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:23.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:23.507][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:23.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:23.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:23.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:23.512][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:23.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:23.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:23.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:23.529][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-08-29 19:27:23.530][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:23.531][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:23.532][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:23.540][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:23.541][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:23.542][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:23.544][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:23.547][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:23.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:23.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:23.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:23.554][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:23.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:23.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:23.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:23.559][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-29 19:27:23.560][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-29 19:27:23.561][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-29 19:27:23.562][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-29 19:27:23.564][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-29 19:27:23.565][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:23.567][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:23.568][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:23.569][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:23.571][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:23.572][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:23.573][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:23.575][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:23.576][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-29 19:27:23.577][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-29 19:27:23.578][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:23.580][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:23.581][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:23.583][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:23.584][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-29 19:27:23.586][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:23.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:23.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:23.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:23.591][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:23.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:23.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:23.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:23.605][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:23.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:23.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:23.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:23.612][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-08-29 19:27:23.613][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:23.615][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:23.616][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:23.623][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:23.624][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:23.626][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:23.627][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:23.629][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:23.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:23.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:23.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:23.634][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:23.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:23.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:23.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:23.640][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-29 19:27:23.641][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-29 19:27:23.642][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-29 19:27:23.643][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-29 19:27:23.645][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-29 19:27:23.646][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:23.648][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:23.648][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:23.650][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:23.651][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:23.653][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:23.654][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:23.655][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:23.656][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-29 19:27:23.657][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-29 19:27:23.658][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:23.660][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:23.661][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:23.662][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:23.663][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-29 19:27:23.664][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:23.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:23.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:23.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:23.670][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:23.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:23.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:23.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:23.675][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:23.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:23.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:23.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:23.681][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-08-29 19:27:23.682][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-29 19:27:23.684][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-08-29 19:27:23.697][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:23.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:23.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:23.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:23.702][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:23.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:23.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:23.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:23.707][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:23.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:23.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:23.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:23.712][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:23.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:23.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:23.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:23.790][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:23.791][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:23.792][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:23.799][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:23.800][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:23.802][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:23.803][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-08-29 19:27:23.807][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-08-29 19:27:23.811][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-29 19:27:23.814][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-08-29 19:27:23.815][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-08-29 19:27:23.819][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-08-29 19:27:23.823][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-29 19:27:23.827][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-08-29 19:27:23.828][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-29 19:27:23.832][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:23.833][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:23.834][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:23.843][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:23.844][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:23.846][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:23.847][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:23.849][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:23.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:23.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:23.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:23.854][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:23.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:23.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:23.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:23.859][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:23.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:23.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:23.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:23.864][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:23.865][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:23.866][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:23.874][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:23.875][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:23.877][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:23.878][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:23.880][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:23.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:23.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:23.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:23.885][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:23.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:23.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:23.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:23.891][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:23.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:23.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:23.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:23.896][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:23.897][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:23.898][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:23.906][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:23.908][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:23.909][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:23.910][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:23.912][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:23.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:23.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:23.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:23.918][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:23.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:23.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:23.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:23.932][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:23.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:23.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:23.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:23.971][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-29 19:27:24.000][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:24.001][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:24.003][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:24.011][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:24.013][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:24.014][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:24.015][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:24.017][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:24.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:24.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:24.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:24.022][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:24.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:24.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:24.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:24.028][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-29 19:27:24.029][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-29 19:27:24.030][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-29 19:27:24.031][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-29 19:27:24.032][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-29 19:27:24.033][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:24.035][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:24.036][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:24.037][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:24.038][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:24.040][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:24.040][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:24.042][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:24.043][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-29 19:27:24.044][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-29 19:27:24.046][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:24.047][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:24.048][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:24.049][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:24.050][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-29 19:27:24.051][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:24.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:24.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:24.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:24.056][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:24.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:24.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:24.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:24.062][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:24.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:24.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:24.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:24.067][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-08-29 19:27:24.068][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:24.069][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:24.071][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:24.087][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:24.089][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:24.090][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:24.092][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[2025-08-29 19:27:24.109][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:24.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:24.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:24.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:24.114][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:24.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:24.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:24.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:24.148][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-29 19:27:24.149][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-29 19:27:24.151][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-29 19:27:24.152][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-29 19:27:24.154][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-29 19:27:24.155][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:24.157][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:24.158][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:24.159][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:24.160][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:24.161][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:24.162][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:24.163][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:24.165][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-29 19:27:24.180][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-29 19:27:24.181][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:24.183][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:24.185][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:24.186][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:24.187][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-29 19:27:24.189][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:24.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:24.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:24.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:24.194][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:24.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:24.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:24.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:24.199][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:24.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:24.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:24.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:24.205][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-08-29 19:27:24.207][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:24.208][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:24.209][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:24.222][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:24.223][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:24.225][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:24.226][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:24.228][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:24.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:24.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:24.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:24.239][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:24.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:24.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:24.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:24.253][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-29 19:27:24.255][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-29 19:27:24.257][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-29 19:27:24.258][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-29 19:27:24.259][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-29 19:27:24.261][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:24.262][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:24.263][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:24.264][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:24.265][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:24.266][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:24.268][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:24.269][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:24.270][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-29 19:27:24.271][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-29 19:27:24.273][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:24.274][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:24.275][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:24.276][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:24.278][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-29 19:27:24.279][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:24.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:24.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:24.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:24.285][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:24.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:24.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:24.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:24.290][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:24.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:24.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:24.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:24.296][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-08-29 19:27:24.297][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-29 19:27:24.298][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-08-29 19:27:24.311][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-08-29 19:27:24.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-08-29 19:27:24.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:24.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-08-29 19:27:24.321][biodb::testThat]
biodb.INFO [2025-08-29 19:27:24.323][biodb::testThat] Running test function  test_annotateMzValues_ppm_tol  (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2025-08-29 19:27:24.324][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-29 19:27:24.326][biodb::testThat]
biodb.TRACE[2025-08-29 19:27:24.330][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-29 19:27:24.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-29 19:27:24.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:24.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:24.336][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:24.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:24.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:24.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:24.341][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:24.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:24.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:24.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:24.347][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:24.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:24.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:24.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:24.352][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:24.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:24.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:24.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:24.360][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:24.361][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:24.362][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:24.370][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:24.372][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:24.373][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:24.374][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-08-29 19:27:24.378][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-08-29 19:27:24.382][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-29 19:27:24.384][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-08-29 19:27:24.386][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-29 19:27:24.389][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:24.391][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:24.392][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:24.400][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:24.402][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:24.403][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:24.405][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:24.406][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:24.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:24.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:24.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:24.412][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:24.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:24.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:24.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:24.418][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:24.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:24.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:24.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-08-29 19:27:24.433][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-08-29 19:27:24.438][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-29 19:27:24.441][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-08-29 19:27:24.442][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-29 19:27:24.446][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:24.447][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:24.453][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:24.461][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:24.463][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:24.464][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:24.467][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:24.469][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:24.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:24.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:24.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:24.477][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:24.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:24.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:24.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:24.483][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:24.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:24.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:24.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:24.488][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:24.490][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:24.491][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:24.499][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:24.500][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:24.502][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:24.503][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:24.505][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:24.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:24.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:24.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:24.511][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:24.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:24.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:24.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:24.515][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:24.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:24.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:24.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:24.521][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-29 19:27:24.523][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:24.524][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:24.525][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:24.532][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:24.534][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:24.535][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:24.537][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:24.538][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:24.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:24.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:24.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:24.545][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:24.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:24.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:24.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:24.549][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-29 19:27:24.551][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-29 19:27:24.552][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-29 19:27:24.553][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-29 19:27:24.555][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-29 19:27:24.556][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:24.558][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:24.559][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:24.560][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:24.561][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:24.563][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:24.564][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:24.566][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:24.567][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-29 19:27:24.568][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-29 19:27:24.570][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:24.571][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:24.572][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:24.574][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:24.575][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-29 19:27:24.576][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:24.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:24.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:24.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:24.582][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:24.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:24.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:24.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:24.587][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:24.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:24.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:24.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:24.593][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-08-29 19:27:24.594][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:24.595][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:24.597][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:24.605][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:24.606][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:24.607][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:24.609][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:24.611][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:24.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:24.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:24.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:24.625][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:24.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:24.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:24.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:24.632][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-29 19:27:24.634][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-29 19:27:24.635][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-29 19:27:24.636][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-29 19:27:24.638][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-29 19:27:24.640][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:24.643][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:24.647][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:24.648][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:24.650][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:24.651][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:24.653][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:24.654][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:24.655][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-29 19:27:24.657][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-29 19:27:24.658][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:24.660][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:24.661][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:24.662][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:24.663][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-29 19:27:24.665][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:24.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:24.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:24.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:24.669][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:24.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:24.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:24.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:24.675][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:24.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:24.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:24.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:24.681][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-08-29 19:27:24.682][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:24.684][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:24.685][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:24.692][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:24.694][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:24.695][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:24.696][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:24.698][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:24.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:24.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:24.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:24.704][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:24.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:24.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:24.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:24.709][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-29 19:27:24.710][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-29 19:27:24.712][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-29 19:27:24.713][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-29 19:27:24.715][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-29 19:27:24.716][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:24.717][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:24.719][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:24.720][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:24.721][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:24.722][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:24.724][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:24.725][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:24.726][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-29 19:27:24.728][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-29 19:27:24.729][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:24.730][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:24.731][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:24.732][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:24.734][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-29 19:27:24.735][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:24.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:24.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:24.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:24.740][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:24.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:24.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:24.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:24.746][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:24.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:24.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:24.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:24.751][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-08-29 19:27:24.752][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-29 19:27:24.754][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-08-29 19:27:24.767][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:24.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:24.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:24.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:24.779][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:24.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:24.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:24.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:24.785][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:24.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:24.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:24.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:24.791][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:24.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:24.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:24.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:24.802][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:24.804][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:24.805][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:25.009][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:25.010][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:25.012][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:25.013][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-08-29 19:27:25.018][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-08-29 19:27:25.022][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-29 19:27:25.027][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-08-29 19:27:25.028][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-08-29 19:27:25.032][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-08-29 19:27:25.036][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-29 19:27:25.039][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-08-29 19:27:25.041][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-29 19:27:25.044][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:25.046][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:25.047][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:25.055][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:25.057][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:25.058][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:25.060][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:25.061][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:25.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:25.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:25.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:25.066][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:25.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:25.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:25.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:25.071][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:25.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:25.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:25.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:25.077][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:25.078][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:25.079][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:25.087][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:25.089][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:25.090][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:25.091][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:25.093][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:25.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:25.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:25.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:25.099][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:25.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:25.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:25.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:25.103][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:25.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:25.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:25.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:25.108][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:25.109][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:25.110][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:25.117][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:25.119][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:25.119][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:25.120][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:25.122][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:25.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:25.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:25.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:25.127][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:25.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:25.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:25.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:25.132][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:25.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:25.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:25.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:25.137][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-29 19:27:25.139][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:25.140][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:25.141][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:25.148][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:25.149][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:25.151][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:25.152][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:25.154][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:25.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:25.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:25.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:25.158][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:25.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:25.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:25.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:25.163][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-29 19:27:25.164][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-29 19:27:25.165][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-29 19:27:25.167][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-29 19:27:25.168][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-29 19:27:25.169][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:25.170][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:25.171][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:25.172][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:25.174][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:25.175][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:25.176][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:25.177][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:25.178][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-29 19:27:25.179][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-29 19:27:25.181][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:25.182][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:25.183][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:25.184][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:25.185][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-29 19:27:25.187][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:25.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:25.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:25.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:25.192][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:25.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:25.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:25.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:25.197][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:25.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:25.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:25.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:25.202][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-08-29 19:27:25.204][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:25.205][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:25.206][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:25.214][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:25.216][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:25.217][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:25.219][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:25.221][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:25.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:25.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:25.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:25.227][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:25.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:25.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:25.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:25.232][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-29 19:27:25.233][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-29 19:27:25.234][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-29 19:27:25.242][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-29 19:27:25.244][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-29 19:27:25.245][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:25.247][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:25.248][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:25.250][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:25.251][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:25.253][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:25.254][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:25.256][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:25.260][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-29 19:27:25.263][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-29 19:27:25.265][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:25.266][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:25.268][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:25.269][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:25.270][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-29 19:27:25.271][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:25.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:25.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:25.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:25.277][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:25.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:25.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:25.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:25.282][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:25.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:25.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:25.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:25.288][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-08-29 19:27:25.290][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:25.291][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:25.293][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:25.301][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:25.302][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:25.304][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:25.305][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:25.307][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:25.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:25.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:25.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:25.313][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:25.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:25.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:25.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:25.318][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-29 19:27:25.319][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-29 19:27:25.320][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-29 19:27:25.322][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-29 19:27:25.323][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-29 19:27:25.324][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:25.326][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:25.327][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:25.328][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:25.330][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:25.331][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:25.332][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:25.333][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:25.334][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-29 19:27:25.336][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-29 19:27:25.337][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:25.339][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:25.340][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:25.341][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:25.343][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-29 19:27:25.344][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:25.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:25.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:25.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:25.349][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:25.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:25.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:25.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:25.355][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:25.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:25.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:25.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:25.360][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-08-29 19:27:25.361][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-29 19:27:25.363][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-08-29 19:27:25.377][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-08-29 19:27:25.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-08-29 19:27:25.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:25.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-08-29 19:27:25.392][biodb::testThat]
biodb.INFO [2025-08-29 19:27:25.394][biodb::testThat] Running test function  test_annotateMzValues_input_dataframe_untouched  (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2025-08-29 19:27:25.396][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-29 19:27:25.397][biodb::testThat]
biodb.TRACE[2025-08-29 19:27:25.403][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-29 19:27:25.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-29 19:27:25.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:25.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:25.410][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:25.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:25.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:25.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:25.416][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:25.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:25.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:25.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:25.422][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:25.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:25.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:25.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:25.428][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:25.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:25.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:25.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:25.441][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:25.442][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:25.444][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:25.452][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:25.454][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:25.456][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:25.457][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-08-29 19:27:25.470][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-08-29 19:27:25.474][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-29 19:27:25.477][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-08-29 19:27:25.478][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-29 19:27:25.482][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:25.483][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:25.484][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:25.492][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:25.493][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:25.495][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:25.496][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:25.498][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:25.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:25.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:25.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:25.503][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:25.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:25.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:25.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:25.515][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:25.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:25.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:25.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-08-29 19:27:25.519][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-08-29 19:27:25.522][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-29 19:27:25.524][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-08-29 19:27:25.526][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-29 19:27:25.529][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:25.531][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:25.532][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:25.543][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:25.545][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:25.547][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:25.549][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:25.551][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:25.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:25.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:25.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:25.556][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:25.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:25.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:25.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:25.560][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:25.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:25.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:25.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:25.565][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:25.566][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:25.567][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:25.575][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:25.576][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:25.577][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:25.578][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:25.580][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:25.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:25.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:25.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:25.585][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:25.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:25.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:25.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:25.589][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:25.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:25.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:25.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:25.593][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-29 19:27:25.595][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:25.597][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:25.597][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:25.604][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:25.605][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:25.607][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:25.608][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:25.609][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:25.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:25.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:25.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:25.615][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:25.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:25.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:25.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:25.620][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-29 19:27:25.621][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-29 19:27:25.623][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-29 19:27:25.624][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-29 19:27:25.625][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-29 19:27:25.627][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:25.628][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:25.629][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:25.630][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:25.631][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:25.633][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:25.633][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:25.634][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:25.636][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-29 19:27:25.637][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-29 19:27:25.638][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:25.639][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:25.641][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:25.642][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:25.643][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-29 19:27:25.645][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:25.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:25.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:25.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:25.650][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:25.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:25.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:25.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:25.654][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:25.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:25.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:25.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:25.660][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-08-29 19:27:25.661][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:25.662][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:25.663][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:25.670][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:25.671][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:25.672][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:25.674][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:25.675][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:25.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:25.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:25.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:25.681][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:25.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:25.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:25.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:25.690][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-29 19:27:25.691][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-29 19:27:25.693][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-29 19:27:25.694][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-29 19:27:25.696][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-29 19:27:25.697][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:25.699][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:25.700][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:25.704][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:25.707][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:25.709][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:25.710][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:25.711][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:25.713][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-29 19:27:25.714][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-29 19:27:25.716][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:25.717][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:25.718][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:25.720][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:25.721][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-29 19:27:25.722][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:25.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:25.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:25.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:25.728][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:25.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:25.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:25.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:25.733][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:25.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:25.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:25.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:25.738][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-08-29 19:27:25.740][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:25.741][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:25.742][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:25.750][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:25.752][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:25.753][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:25.755][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:25.757][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:25.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:25.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:25.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:25.763][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:25.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:25.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:25.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:25.769][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-29 19:27:25.770][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-29 19:27:25.772][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-29 19:27:25.773][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-29 19:27:25.774][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-29 19:27:25.776][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:25.777][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:25.778][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:25.780][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:25.781][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:25.782][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:25.784][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:25.785][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:25.787][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-29 19:27:25.788][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-29 19:27:25.789][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:25.791][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:25.792][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:25.794][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:25.795][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-29 19:27:25.796][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:25.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:25.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:25.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:25.802][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:25.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:25.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:25.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:25.807][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:25.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:25.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:25.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:25.812][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-08-29 19:27:25.813][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-29 19:27:25.814][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-08-29 19:27:25.844][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:25.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:25.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:25.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:25.850][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:25.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:25.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:25.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:25.855][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:25.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:25.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:25.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:25.860][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:25.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:25.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:25.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:25.871][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:25.872][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:25.873][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:25.880][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:25.881][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:25.883][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:25.884][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-08-29 19:27:25.887][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-08-29 19:27:25.891][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-29 19:27:25.893][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-08-29 19:27:25.894][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-08-29 19:27:25.898][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-08-29 19:27:25.901][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-29 19:27:25.904][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-08-29 19:27:25.906][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-29 19:27:25.915][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:25.916][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:25.918][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:25.924][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:25.925][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:25.926][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:25.927][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:25.928][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:25.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:25.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:25.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:25.934][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:25.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:25.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:25.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:25.938][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:25.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:25.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:25.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:25.944][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:25.945][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:25.946][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:25.953][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:25.954][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:25.955][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:25.957][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:25.958][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:25.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:25.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:25.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:25.962][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:25.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:25.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:25.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:25.966][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:25.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:25.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:25.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:25.971][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:25.972][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:25.973][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:25.979][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:25.980][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:25.982][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:25.983][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:25.984][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:25.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:25.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:25.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:25.990][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:25.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:25.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:25.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:25.995][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:25.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:25.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:26.001][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-29 19:27:26.004][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:26.005][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:26.006][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:26.014][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:26.015][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:26.017][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:26.018][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:26.020][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:26.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:26.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.025][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:26.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:26.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.031][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-29 19:27:26.032][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-29 19:27:26.033][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-29 19:27:26.034][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-29 19:27:26.036][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-29 19:27:26.037][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:26.038][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:26.040][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.041][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.042][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:26.044][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:26.045][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.046][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.047][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-29 19:27:26.049][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-29 19:27:26.050][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:26.051][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:26.052][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.053][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.054][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-29 19:27:26.056][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:26.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:26.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.092][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:26.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:26.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.115][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:26.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:26.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.128][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-08-29 19:27:26.136][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:26.138][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:26.140][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:26.147][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:26.148][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:26.149][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:26.150][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[2025-08-29 19:27:26.152][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:26.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:26.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.158][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:26.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:26.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.164][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-29 19:27:26.165][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-29 19:27:26.166][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-29 19:27:26.167][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-29 19:27:26.168][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-29 19:27:26.169][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:26.171][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:26.172][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.173][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.174][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:26.175][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:26.176][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.177][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.178][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-29 19:27:26.179][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-29 19:27:26.180][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:26.182][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:26.182][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.183][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.185][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-29 19:27:26.186][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:26.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:26.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.190][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:26.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:26.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.195][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:26.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:26.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.200][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-08-29 19:27:26.201][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:26.202][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:26.203][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:26.210][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:26.212][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:26.213][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:26.214][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:26.216][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:26.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:26.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.221][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:26.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:26.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.226][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-29 19:27:26.227][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-29 19:27:26.228][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-29 19:27:26.229][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-29 19:27:26.231][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-29 19:27:26.232][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:26.233][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:26.234][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.236][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.237][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:26.239][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:26.240][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.241][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.242][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-29 19:27:26.244][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-29 19:27:26.245][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:26.246][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:26.247][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.248][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.250][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-29 19:27:26.251][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:26.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:26.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.256][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:26.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:26.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.260][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:26.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:26.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.266][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-08-29 19:27:26.267][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-29 19:27:26.268][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-08-29 19:27:26.302][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-08-29 19:27:26.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-08-29 19:27:26.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-08-29 19:27:26.313][biodb::testThat]
biodb.INFO [2025-08-29 19:27:26.314][biodb::testThat] Running test function  test.wrong.entry  (" Wrong entry gives NULL ").
biodb.INFO [2025-08-29 19:27:26.316][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-29 19:27:26.317][biodb::testThat]
biodb.DEBUG[2025-08-29 19:27:26.320][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2025-08-29 19:27:26.322][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-29 19:27:26.324][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-29 19:27:26.327][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGA.xml.
biodb.DEBUG[2025-08-29 19:27:26.329][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-29 19:27:26.330][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-29 19:27:26.332][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-29 19:27:26.334][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:26.335][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:26.337][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:26.344][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:26.345][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:26.347][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:26.348][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:26.351][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:26.353][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:26.354][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.355][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.357][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:26.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:26.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.363][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-29 19:27:26.364][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-29 19:27:26.366][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.367][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.369][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-29 19:27:26.370][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-29 19:27:26.372][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.373][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.375][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-29 19:27:26.376][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-29 19:27:26.377][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.379][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.380][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-29 19:27:26.382][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-29 19:27:26.383][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.384][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.386][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-29 19:27:26.387][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-29 19:27:26.388][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.396][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.397][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-29 19:27:26.399][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:26.400][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.401][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.402][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:26.404][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:26.405][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.406][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.407][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-29 19:27:26.408][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-29 19:27:26.409][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.410][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.412][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-29 19:27:26.413][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-29 19:27:26.415][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.416][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.418][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-29 19:27:26.419][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-29 19:27:26.420][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.422][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.423][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:26.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:26.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.428][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:26.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:26.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.433][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:26.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:26.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.437][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:26.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:26.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.442][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:26.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:26.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.447][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:26.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:26.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.452][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:26.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:26.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.456][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:26.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:26.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.461][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:26.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:26.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.466][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:26.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:26.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:26.471][self$createEntryFromContent] Accession numbers: .
biodb.DEBUG[2025-08-29 19:27:26.472][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2025-08-29 19:27:26.483][biodb::testThat]
biodb.INFO [2025-08-29 19:27:26.484][biodb::testThat] Running test function  test.wrong.entry.among.good.ones  (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2025-08-29 19:27:26.486][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-29 19:27:26.487][biodb::testThat]
biodb.DEBUG[2025-08-29 19:27:26.498][function(conn, opt)] IDS: [4]: "WRONGB, 15440, 2528, 7799"
biodb.DEBUG[2025-08-29 19:27:26.500][private$loadEntries] Creating entries from ids [3]: "WRONGB, 2528, 7799".
biodb.DEBUG[2025-08-29 19:27:26.502][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
fscache.INFO [2025-08-29 19:27:26.504][cch$loadContents] Load 3 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-29 19:27:26.507][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGB.xml.
fscache.DEBUG[2025-08-29 19:27:26.511][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2528.xml.
fscache.DEBUG[2025-08-29 19:27:26.515][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7799.xml.
biodb.DEBUG[2025-08-29 19:27:26.518][conn$getEntryContent] 3 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-29 19:27:26.521][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2025-08-29 19:27:26.523][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2025-08-29 19:27:26.525][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:26.526][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:26.527][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:26.533][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:26.534][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:26.536][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:26.537][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:26.540][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:26.542][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:26.543][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.544][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.546][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:26.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:26.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.551][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-29 19:27:26.552][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-29 19:27:26.553][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.555][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.556][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-29 19:27:26.557][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-29 19:27:26.559][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.560][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.561][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-29 19:27:26.563][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-29 19:27:26.564][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.565][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.567][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-29 19:27:26.568][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-29 19:27:26.569][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.570][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.572][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-29 19:27:26.573][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-29 19:27:26.575][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.576][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.577][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-29 19:27:26.579][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:26.580][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.581][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.583][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:26.584][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:26.585][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.587][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.588][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-29 19:27:26.590][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-29 19:27:26.591][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.592][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.594][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-29 19:27:26.595][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-29 19:27:26.597][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.598][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.599][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-29 19:27:26.601][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-29 19:27:26.602][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.603][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.605][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:26.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:26.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.610][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:26.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:26.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.615][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:26.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:26.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.620][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:26.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:26.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.625][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:26.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:26.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.630][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:26.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:26.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.635][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:26.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:26.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:26.641][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:26.642][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:26.644][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:26.651][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:26.652][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:26.653][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:26.655][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:26.658][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:26.660][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:26.661][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.662][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.664][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:26.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:26.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.670][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-29 19:27:26.671][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-29 19:27:26.672][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.674][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.675][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-29 19:27:26.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-29 19:27:26.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.681][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-29 19:27:26.682][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-29 19:27:26.684][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.685][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.687][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-29 19:27:26.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-29 19:27:26.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.692][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-29 19:27:26.694][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-29 19:27:26.695][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.696][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.698][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-29 19:27:26.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-29 19:27:26.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.703][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-29 19:27:26.705][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-29 19:27:26.706][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.707][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.709][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-29 19:27:26.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-29 19:27:26.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.714][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-29 19:27:26.715][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-29 19:27:26.716][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.717][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.719][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-29 19:27:26.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-29 19:27:26.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.725][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-29 19:27:26.726][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:26.727][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.728][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.729][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-29 19:27:26.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:26.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.734][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:26.736][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:26.737][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.738][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.740][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:26.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:26.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.746][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-29 19:27:26.747][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-29 19:27:26.748][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.749][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.751][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-29 19:27:26.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-29 19:27:26.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.756][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-29 19:27:26.757][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-29 19:27:26.759][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.760][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.761][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-29 19:27:26.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-29 19:27:26.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.766][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-29 19:27:26.768][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-29 19:27:26.769][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.770][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.772][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-29 19:27:26.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-29 19:27:26.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.777][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:26.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:26.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.783][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:26.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:26.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.787][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:26.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:26.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.791][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:26.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:26.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.815][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:26.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:26.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.819][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:26.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:26.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.824][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:26.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:26.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:26.829][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:26.829][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:26.830][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:26.837][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:26.838][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:26.839][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:26.841][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:26.844][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:26.845][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:26.847][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.848][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.850][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:26.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:26.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.854][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-29 19:27:26.855][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-29 19:27:26.856][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.857][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.858][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-29 19:27:26.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-29 19:27:26.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.862][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-29 19:27:26.863][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-29 19:27:26.864][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.865][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.867][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-29 19:27:26.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-29 19:27:26.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.872][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-29 19:27:26.874][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-29 19:27:26.875][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.876][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.878][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-29 19:27:26.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-29 19:27:26.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.883][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-29 19:27:26.884][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-29 19:27:26.886][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.887][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.888][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-29 19:27:26.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-29 19:27:26.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.903][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-29 19:27:26.905][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-29 19:27:26.907][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.908][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.910][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-29 19:27:26.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-29 19:27:26.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.916][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-29 19:27:26.917][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:26.919][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.920][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.921][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-29 19:27:26.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:26.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.926][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:26.927][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:26.928][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.929][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.930][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:26.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:26.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.935][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-29 19:27:26.937][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-29 19:27:26.938][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.939][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.940][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-29 19:27:26.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-29 19:27:26.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.945][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-29 19:27:26.946][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-29 19:27:26.947][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.948][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.949][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-29 19:27:26.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-29 19:27:26.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.954][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-29 19:27:26.956][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-29 19:27:26.957][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.958][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.960][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-29 19:27:26.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-29 19:27:26.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.964][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:26.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:26.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.969][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:26.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:26.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.974][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:26.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:26.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.980][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:26.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:26.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.985][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:26.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:26.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.990][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:26.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:26.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.994][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:26.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:26.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:26.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:26.999][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:27.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:27.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:27.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:27.003][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:27.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:27.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:27.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:27.007][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:27.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:27.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:27.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:27.012][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:27.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:27.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:27.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:27.017][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:27.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:27.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:27.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:27.023][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:27.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:27.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:27.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:27.028][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:27.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:27.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:27.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:27.033][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:27.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:27.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:27.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:27.057][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:27.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:27.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:27.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:27.063][self$createEntryFromContent] Accession numbers: , 2528, 7799.
biodb.DEBUG[2025-08-29 19:27:27.065][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2025-08-29 19:27:27.066][function(conn, opt)] Entries: [4]: "NULL, <environment>, <environment>, <environment>"
biodb.INFO [2025-08-29 19:27:27.089][biodb::testThat]
biodb.INFO [2025-08-29 19:27:27.090][biodb::testThat] Running test function  test.peak.table  (" The peak table is correct. ").
biodb.INFO [2025-08-29 19:27:27.091][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-29 19:27:27.092][biodb::testThat]
biodb.INFO [2025-08-29 19:27:27.121][biodb::testThat]
biodb.INFO [2025-08-29 19:27:27.123][biodb::testThat] Running test function  test.nb.entries  (" Nb entries is positive. ").
biodb.INFO [2025-08-29 19:27:27.124][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-29 19:27:27.126][biodb::testThat]
biodb.INFO [2025-08-29 19:27:27.138][biodb::testThat]
biodb.INFO [2025-08-29 19:27:27.140][biodb::testThat] Running test function  test.entry.ids  (" We can get a list of entry ids. ").
biodb.INFO [2025-08-29 19:27:27.141][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-29 19:27:27.143][biodb::testThat]
sched.DEBUG[2025-08-29 19:27:27.146][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=1*&searchCategory=CHEBI ID&maximumResults=100&starsCategory=ALL".
fscache.INFO [2025-08-29 19:27:27.150][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-29 19:27:27.156][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/02ece1564def26723013d564c4071584.content.
sched.DEBUG[2025-08-29 19:27:27.157][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.TRACE[2025-08-29 19:27:27.176][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-29 19:27:27.177][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-29 19:27:27.179][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:27.180][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:27.182][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:27.183][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:27.184][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:27.186][ef$get] fields variable is a list.
biodb.INFO [2025-08-29 19:27:27.188][biodb::testThat]
biodb.INFO [2025-08-29 19:27:27.189][biodb::testThat] Running test function  test.annotateMzValues  (" annotateMzValues() works correctly. ").
biodb.INFO [2025-08-29 19:27:27.190][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-29 19:27:27.191][biodb::testThat]
biodb.ERROR[2025-08-29 19:27:27.207][conn$annotateMzValues] No column named "mz" was found inside data frame.
biodb.ERROR[2025-08-29 19:27:27.236][ef$checkIsDefined] Field(s) "foo" is/are not defined.
biodb.INFO [2025-08-29 19:27:27.262][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-08-29 19:27:27.264][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-08-29 19:27:27.265][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-08-29 19:27:27.267][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:27.269][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:27.271][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:27.272][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:27.273][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:27.275][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-08-29 19:27:27.288][biodb::testContext]
biodb.INFO [2025-08-29 19:27:27.289][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-29 19:27:27.291][biodb::testContext] Test context - Test conversions
biodb.INFO [2025-08-29 19:27:27.292][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-29 19:27:27.294][biodb::testContext]
biodb.INFO [2025-08-29 19:27:27.297][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.1.
biodb.DEBUG[2025-08-29 19:27:27.299][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-08-29 19:27:27.304][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-29 19:27:27.305][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-08-29 19:27:27.306][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-08-29 19:27:27.307][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:27.307][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:27.308][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:27.310][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-08-29 19:27:27.311][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-08-29 19:27:27.312][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:27.313][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:27.314][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:27.315][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-08-29 19:27:27.316][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-08-29 19:27:27.317][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:27.318][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:27.319][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:27.319][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-08-29 19:27:27.320][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-08-29 19:27:27.322][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-08-29 19:27:27.323][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:27.324][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:27.325][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:27.326][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-08-29 19:27:27.328][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-08-29 19:27:27.329][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-08-29 19:27:27.330][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:27.331][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:27.332][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:27.333][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-08-29 19:27:27.334][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-08-29 19:27:27.336][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:27.336][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:27.337][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:27.338][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-08-29 19:27:27.339][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-08-29 19:27:27.340][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-08-29 19:27:27.341][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:27.341][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:27.343][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:27.344][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-08-29 19:27:27.345][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-08-29 19:27:27.346][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:27.347][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:27.348][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:27.367][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-08-29 19:27:27.368][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-08-29 19:27:27.370][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-08-29 19:27:27.371][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:27.372][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:27.373][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:27.375][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-08-29 19:27:27.376][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-08-29 19:27:27.377][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-08-29 19:27:27.379][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-08-29 19:27:27.382][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-08-29 19:27:27.384][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-08-29 19:27:27.385][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:27.387][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:27.388][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:27.389][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-08-29 19:27:27.390][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-08-29 19:27:27.391][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:27.392][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:27.394][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:27.395][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-08-29 19:27:27.396][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-08-29 19:27:27.397][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:27.398][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:27.399][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:27.400][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-08-29 19:27:27.401][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-08-29 19:27:27.402][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:27.403][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:27.404][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:27.405][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-08-29 19:27:27.405][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-08-29 19:27:27.406][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-08-29 19:27:27.407][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:27.408][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:27.409][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:27.410][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-08-29 19:27:27.411][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-08-29 19:27:27.435][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-08-29 19:27:27.437][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:27.439][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:27.440][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.DEBUG[2025-08-29 19:27:27.441][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-08-29 19:27:27.442][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-08-29 19:27:27.443][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-08-29 19:27:27.444][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:27.444][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:27.445][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:27.446][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-08-29 19:27:27.449][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-29 19:27:27.450][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-08-29 19:27:27.451][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-29 19:27:27.452][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-29 19:27:27.453][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-29 19:27:27.454][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-29 19:27:27.455][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-29 19:27:27.456][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-29 19:27:27.457][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-29 19:27:27.459][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-29 19:27:27.460][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-29 19:27:27.461][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-08-29 19:27:27.463][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-29 19:27:27.464][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-29 19:27:27.465][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-29 19:27:27.467][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-29 19:27:27.467][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-29 19:27:27.467][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-29 19:27:27.467][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-29 19:27:27.467][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-29 19:27:27.468][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-29 19:27:27.469][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-29 19:27:27.470][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-29 19:27:27.471][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-29 19:27:27.472][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-29 19:27:27.474][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-29 19:27:27.475][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-29 19:27:27.476][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-29 19:27:27.478][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-29 19:27:27.479][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-29 19:27:27.480][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-29 19:27:27.482][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-29 19:27:27.483][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-08-29 19:27:27.485][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-29 19:27:27.487][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-08-29 19:27:27.488][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-29 19:27:27.489][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-29 19:27:27.491][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-29 19:27:27.492][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-29 19:27:27.493][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-29 19:27:27.495][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-29 19:27:27.496][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-29 19:27:27.497][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-29 19:27:27.499][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-29 19:27:27.500][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-08-29 19:27:27.501][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-29 19:27:27.521][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-29 19:27:27.523][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-29 19:27:27.524][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-29 19:27:27.524][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-29 19:27:27.524][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-29 19:27:27.524][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-29 19:27:27.524][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-29 19:27:27.526][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-29 19:27:27.527][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-29 19:27:27.528][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-29 19:27:27.528][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-29 19:27:27.530][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-29 19:27:27.531][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-29 19:27:27.532][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-29 19:27:27.534][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-29 19:27:27.535][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-29 19:27:27.537][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-29 19:27:27.538][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-29 19:27:27.540][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-29 19:27:27.544][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-08-29 19:27:27.547][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-29 19:27:27.548][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-08-29 19:27:27.549][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-29 19:27:27.550][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-29 19:27:27.551][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-29 19:27:27.552][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-29 19:27:27.554][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-29 19:27:27.555][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-29 19:27:27.556][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-29 19:27:27.557][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-29 19:27:27.558][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-29 19:27:27.558][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-08-29 19:27:27.560][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-29 19:27:27.561][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-29 19:27:27.562][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-29 19:27:27.563][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-08-29 19:27:27.564][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-29 19:27:27.565][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-29 19:27:27.565][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-29 19:27:27.566][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-29 19:27:27.567][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-29 19:27:27.568][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-29 19:27:27.569][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-29 19:27:27.570][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-29 19:27:27.571][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-29 19:27:27.572][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-29 19:27:27.573][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-29 19:27:27.574][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-29 19:27:27.575][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-08-29 19:27:27.576][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-29 19:27:27.577][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-08-29 19:27:27.578][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-29 19:27:27.579][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-29 19:27:27.580][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-29 19:27:27.582][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-29 19:27:27.583][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-29 19:27:27.584][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-29 19:27:27.585][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-29 19:27:27.586][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-29 19:27:27.587][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-29 19:27:27.588][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-08-29 19:27:27.589][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-29 19:27:27.590][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-29 19:27:27.592][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-29 19:27:27.593][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-08-29 19:27:27.594][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-29 19:27:27.596][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-29 19:27:27.597][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-29 19:27:27.598][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-29 19:27:27.599][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-29 19:27:27.600][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-29 19:27:27.601][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-29 19:27:27.602][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-29 19:27:27.603][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-29 19:27:27.604][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-29 19:27:27.605][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-29 19:27:27.607][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-29 19:27:27.608][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-29 19:27:27.609][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:27.610][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:27.611][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:27.612][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:27.613][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:27.614][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:27.615][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:27.616][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:27.617][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:27.618][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:27.619][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:27.621][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:27.622][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:27.623][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:27.624][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:27.626][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:27.627][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.DEBUG[2025-08-29 19:27:27.628][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:27.629][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:27.631][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:27.632][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:27.633][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:27.634][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:27.635][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:27.636][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:27.637][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:27.638][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:27.639][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:27.640][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:27.641][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:27.643][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:27.644][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:27.645][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:27.646][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:27.647][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:27.648][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:27.649][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:27.650][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:27.650][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:27.651][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:27.652][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:27.653][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:27.654][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:27.655][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:27.656][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:27.657][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:27.658][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[2025-08-29 19:27:27.660][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:27.661][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:27.663][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:27.664][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:27.665][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:27.683][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:27.685][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:27.686][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:27.688][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:27.697][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:27.699][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:27.701][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:27.704][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:27.706][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:27.707][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:27.709][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:27.710][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:27.711][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:27.713][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:27.714][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:27.715][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:27.716][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:27.717][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:27.717][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:27.718][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[2025-08-29 19:27:27.719][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:27.720][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:27.720][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:27.721][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:27.722][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:27.723][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:27.724][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:27.725][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:27.726][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:27.727][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[2025-08-29 19:27:27.728][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-08-29 19:27:27.730][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-08-29 19:27:27.732][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-08-29 19:27:27.734][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-08-29 19:27:27.735][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-08-29 19:27:27.737][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-08-29 19:27:27.738][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-08-29 19:27:27.740][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-08-29 19:27:27.741][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-08-29 19:27:27.743][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-08-29 19:27:27.744][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-08-29 19:27:27.746][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-08-29 19:27:27.747][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-08-29 19:27:27.748][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-08-29 19:27:27.750][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-08-29 19:27:27.752][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-08-29 19:27:27.753][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-08-29 19:27:27.755][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-08-29 19:27:27.757][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-08-29 19:27:27.758][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-08-29 19:27:27.759][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-08-29 19:27:27.760][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-08-29 19:27:27.762][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-08-29 19:27:27.763][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-08-29 19:27:27.764][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-08-29 19:27:27.765][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-08-29 19:27:27.767][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-08-29 19:27:27.768][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-08-29 19:27:27.770][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-08-29 19:27:27.771][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-08-29 19:27:27.773][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-08-29 19:27:27.774][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-08-29 19:27:27.776][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-08-29 19:27:27.778][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-08-29 19:27:27.780][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-08-29 19:27:27.782][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-08-29 19:27:27.784][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-08-29 19:27:27.786][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-08-29 19:27:27.787][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-08-29 19:27:27.789][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-08-29 19:27:27.790][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-08-29 19:27:27.792][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-08-29 19:27:27.794][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-08-29 19:27:27.795][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-08-29 19:27:27.796][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-08-29 19:27:27.798][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-08-29 19:27:27.799][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-08-29 19:27:27.801][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-08-29 19:27:27.803][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-08-29 19:27:27.804][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-08-29 19:27:27.806][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-08-29 19:27:27.807][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-08-29 19:27:27.809][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-08-29 19:27:27.810][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-08-29 19:27:27.812][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-08-29 19:27:27.814][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-08-29 19:27:27.816][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-08-29 19:27:27.818][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-08-29 19:27:27.820][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-08-29 19:27:27.822][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-08-29 19:27:27.824][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-08-29 19:27:27.842][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-08-29 19:27:27.845][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-08-29 19:27:27.847][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-08-29 19:27:27.849][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-08-29 19:27:27.850][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-08-29 19:27:27.852][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-08-29 19:27:27.855][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-08-29 19:27:27.858][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-08-29 19:27:27.861][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-08-29 19:27:27.865][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-08-29 19:27:27.867][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-08-29 19:27:27.868][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-08-29 19:27:27.870][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-08-29 19:27:27.872][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-08-29 19:27:27.874][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-08-29 19:27:27.876][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-08-29 19:27:27.878][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-08-29 19:27:27.880][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-08-29 19:27:27.882][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-08-29 19:27:27.883][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-08-29 19:27:27.884][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-08-29 19:27:27.886][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-08-29 19:27:27.887][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-08-29 19:27:27.889][initialize] This is biodb version 1.17.1.
biodb.DEBUG[2025-08-29 19:27:27.890][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-29 19:27:27.891][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:27.892][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:27.893][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:27.895][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:27.896][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:27.897][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:27.898][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:27.899][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:27.900][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:27.901][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:27.902][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:27.903][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:27.904][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:27.905][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:27.905][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:27.906][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:27.907][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:27.908][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:27.909][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:27.911][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:27.912][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:27.913][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:27.914][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:27.915][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:27.916][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:27.917][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:27.918][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:27.919][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:27.920][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:27.922][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:27.923][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:27.924][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:27.926][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:27.927][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:27.928][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:27.929][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:27.931][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:27.932][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:27.933][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[2025-08-29 19:27:27.934][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:27.935][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:27.936][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:27.936][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:27.937][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:27.938][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:27.939][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[2025-08-29 19:27:27.941][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:27.942][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:27.943][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:27.944][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:27.945][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:27.946][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:27.947][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:27.949][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:27.950][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:27.951][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:27.952][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:27.953][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:27.954][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:27.955][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[2025-08-29 19:27:27.956][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:27.957][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:27.957][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:27.958][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:27.960][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:27.961][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:27.963][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:27.964][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:27.965][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:27.966][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:27.968][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:27.969][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:27.970][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:27.971][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:27.972][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:27.973][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:27.973][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:27.974][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:27.975][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:27.976][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:27.977][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:27.977][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:27.978][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:27.979][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:27.980][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:27.980][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:27.981][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:27.982][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:27.983][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:27.984][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:27.985][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:27.985][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:27.986][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:28.005][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:28.007][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:28.008][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:28.009][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:28.010][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:28.011][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:28.012][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:28.013][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:28.014][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:28.015][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:28.016][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:28.017][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:28.019][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:28.020][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:28.022][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:28.024][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:28.027][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:28.028][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:28.029][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:28.030][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:28.030][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:28.031][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:28.032][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:28.035][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-08-29 19:27:28.037][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-08-29 19:27:28.039][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-29 19:27:28.040][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-08-29 19:27:28.041][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-29 19:27:28.043][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-29 19:27:28.044][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-29 19:27:28.045][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-29 19:27:28.046][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-08-29 19:27:28.047][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-08-29 19:27:28.048][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-08-29 19:27:28.049][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-29 19:27:28.050][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-29 19:27:28.051][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-08-29 19:27:28.052][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-29 19:27:28.053][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-08-29 19:27:28.053][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-08-29 19:27:28.053][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-08-29 19:27:28.053][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-08-29 19:27:28.053][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-08-29 19:27:28.053][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-08-29 19:27:28.053][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-08-29 19:27:28.053][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-08-29 19:27:28.053][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-08-29 19:27:28.053][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-08-29 19:27:28.053][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-08-29 19:27:28.054][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-08-29 19:27:28.056][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-29 19:27:28.056][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-29 19:27:28.056][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-29 19:27:28.057][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-08-29 19:27:28.058][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-29 19:27:28.059][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-29 19:27:28.060][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-29 19:27:28.061][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-29 19:27:28.062][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-29 19:27:28.063][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-29 19:27:28.064][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-29 19:27:28.064][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-08-29 19:27:28.065][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-29 19:27:28.066][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-29 19:27:28.067][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-08-29 19:27:28.068][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-08-29 19:27:28.068][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-08-29 19:27:28.069][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-08-29 19:27:28.071][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-08-29 19:27:28.073][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-08-29 19:27:28.074][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-08-29 19:27:28.076][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-08-29 19:27:28.078][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-08-29 19:27:28.089][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-08-29 19:27:28.098][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-08-29 19:27:28.100][biodb::testThat]
biodb.INFO [2025-08-29 19:27:28.101][biodb::testThat] Running test function  test_chebi_convCasToChebi  (" convCasToChebi() works. ").
biodb.INFO [2025-08-29 19:27:28.103][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-29 19:27:28.104][biodb::testThat]
sched.DEBUG[2025-08-29 19:27:28.108][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-08-29 19:27:28.111][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-29 19:27:28.116][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-08-29 19:27:28.118][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-08-29 19:27:28.123][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-08-29 19:27:28.126][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-29 19:27:28.129][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-08-29 19:27:28.130][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-29 19:27:28.132][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:28.133][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:28.134][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:28.140][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:28.141][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:28.142][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:28.143][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-08-29 19:27:28.146][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-08-29 19:27:28.148][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-29 19:27:28.150][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-08-29 19:27:28.151][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-29 19:27:28.153][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:28.154][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:28.155][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:28.161][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:28.162][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:28.164][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:28.165][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.DEBUG[2025-08-29 19:27:28.186][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:28.187][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:28.189][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:28.196][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:28.197][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:28.199][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:28.200][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-08-29 19:27:28.205][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-08-29 19:27:28.207][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-29 19:27:28.209][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-08-29 19:27:28.210][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-29 19:27:28.212][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:28.213][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:28.214][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:28.219][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:28.220][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:28.221][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:28.222][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-08-29 19:27:28.224][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-08-29 19:27:28.227][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-29 19:27:28.229][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-08-29 19:27:28.230][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-29 19:27:28.231][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:28.232][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:28.233][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:28.239][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:28.240][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:28.241][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:28.242][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:28.244][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:28.245][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:28.246][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:28.253][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:28.254][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:28.256][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:28.257][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-08-29 19:27:28.261][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-08-29 19:27:28.264][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-29 19:27:28.267][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-08-29 19:27:28.268][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-29 19:27:28.269][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:28.270][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:28.271][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:28.277][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:28.278][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:28.280][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:28.280][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-08-29 19:27:28.283][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-08-29 19:27:28.285][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-29 19:27:28.287][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-08-29 19:27:28.288][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-29 19:27:28.290][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:28.291][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:28.292][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:28.297][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:28.298][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:28.299][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:28.300][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-08-29 19:27:28.302][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=14215-68-0&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-08-29 19:27:28.304][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-29 19:27:28.307][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/d853ab8a48594978d76c30b86726648a.content.
sched.DEBUG[2025-08-29 19:27:28.308][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-29 19:27:28.310][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:28.311][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:28.312][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:28.319][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:28.320][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:28.321][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:28.322][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-08-29 19:27:28.330][biodb::testThat]
biodb.INFO [2025-08-29 19:27:28.331][biodb::testThat] Running test function  test_chebi_convInchiToChebi  (" convInchiToChebi() works. ").
biodb.INFO [2025-08-29 19:27:28.332][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-29 19:27:28.333][biodb::testThat]
sched.DEBUG[2025-08-29 19:27:28.337][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=InChI=1S/C15H24/c1-9(2)11-7-8-15(4)12-6-5-10(3)14(15)13(11)12/h5,9,11-14H,6-8H2,1-4H3/t11?,12?,13?,14?,15-/m0/s1&searchCategory=INCHI/INCHI KEY&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-08-29 19:27:28.340][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-29 19:27:28.342][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/aa56e28005d49da17591454624aabcd2.content.
sched.DEBUG[2025-08-29 19:27:28.344][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-29 19:27:28.346][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:28.347][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:28.348][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:28.355][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:28.356][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:28.357][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:28.358][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-08-29 19:27:28.362][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=VLXDPFLIRFYIME-MWHZVNNOSA-N&searchCategory=INCHI/INCHI KEY&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-08-29 19:27:28.365][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-29 19:27:28.374][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/c62078a064e3122e21e26c3428179396.content.
sched.DEBUG[2025-08-29 19:27:28.376][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-29 19:27:28.378][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:28.379][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:28.381][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:28.387][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:28.388][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:28.388][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:28.389][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-08-29 19:27:28.395][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-08-29 19:27:28.397][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-08-29 19:27:28.398][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-08-29 19:27:28.399][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:28.400][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:28.401][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:28.401][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:28.402][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:28.403][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.INFO [2025-08-29 19:27:28.407][biodb::testContext]
biodb.INFO [2025-08-29 19:27:28.408][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-29 19:27:28.409][biodb::testContext] Test context - Test web services
biodb.INFO [2025-08-29 19:27:28.410][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-29 19:27:28.411][biodb::testContext]
biodb.INFO [2025-08-29 19:27:28.413][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.1.
biodb.DEBUG[2025-08-29 19:27:28.415][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-08-29 19:27:28.419][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-29 19:27:28.420][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-08-29 19:27:28.421][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-08-29 19:27:28.422][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:28.423][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:28.424][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:28.425][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-08-29 19:27:28.426][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-08-29 19:27:28.427][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:28.428][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:28.429][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[2025-08-29 19:27:28.430][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-08-29 19:27:28.431][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-08-29 19:27:28.432][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:28.433][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:28.434][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:28.435][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-08-29 19:27:28.436][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-08-29 19:27:28.437][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-08-29 19:27:28.437][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:28.438][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:28.439][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[2025-08-29 19:27:28.440][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-08-29 19:27:28.441][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-08-29 19:27:28.442][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-08-29 19:27:28.443][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:28.444][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:28.445][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:28.446][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-08-29 19:27:28.447][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-08-29 19:27:28.448][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:28.448][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:28.449][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[2025-08-29 19:27:28.451][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-08-29 19:27:28.452][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-08-29 19:27:28.453][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-08-29 19:27:28.454][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:28.455][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:28.456][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:28.457][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-08-29 19:27:28.459][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-08-29 19:27:28.460][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:28.461][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:28.462][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:28.463][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-08-29 19:27:28.464][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-08-29 19:27:28.465][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-08-29 19:27:28.466][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:28.467][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:28.468][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:28.469][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-08-29 19:27:28.470][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-08-29 19:27:28.471][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-08-29 19:27:28.472][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-08-29 19:27:28.473][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-08-29 19:27:28.474][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-08-29 19:27:28.475][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:28.476][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:28.477][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:28.477][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-08-29 19:27:28.478][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-08-29 19:27:28.479][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:28.480][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:28.481][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:28.481][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-08-29 19:27:28.482][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-08-29 19:27:28.483][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:28.484][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:28.485][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:28.486][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-08-29 19:27:28.487][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-08-29 19:27:28.488][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:28.489][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:28.490][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:28.492][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-08-29 19:27:28.493][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-08-29 19:27:28.494][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-08-29 19:27:28.496][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:28.496][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:28.497][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[2025-08-29 19:27:28.499][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-08-29 19:27:28.500][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-08-29 19:27:28.523][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-08-29 19:27:28.524][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:28.526][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:28.527][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:28.528][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-08-29 19:27:28.530][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-08-29 19:27:28.531][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-08-29 19:27:28.532][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:28.533][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:28.535][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:28.536][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-08-29 19:27:28.538][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-29 19:27:28.539][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-08-29 19:27:28.540][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-29 19:27:28.541][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-29 19:27:28.542][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-29 19:27:28.543][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-29 19:27:28.544][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-29 19:27:28.545][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-29 19:27:28.546][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-29 19:27:28.547][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-29 19:27:28.548][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-29 19:27:28.549][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-08-29 19:27:28.550][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-29 19:27:28.551][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-29 19:27:28.552][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-29 19:27:28.553][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-29 19:27:28.553][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-29 19:27:28.553][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-29 19:27:28.553][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-29 19:27:28.553][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-29 19:27:28.554][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-29 19:27:28.554][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-29 19:27:28.555][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-29 19:27:28.556][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-29 19:27:28.557][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-29 19:27:28.558][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-29 19:27:28.560][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-29 19:27:28.561][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-29 19:27:28.562][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-29 19:27:28.564][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-29 19:27:28.565][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-29 19:27:28.567][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-29 19:27:28.568][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-08-29 19:27:28.570][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-29 19:27:28.571][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-08-29 19:27:28.572][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-29 19:27:28.573][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-29 19:27:28.574][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-29 19:27:28.575][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-29 19:27:28.576][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-29 19:27:28.577][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-29 19:27:28.578][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-29 19:27:28.579][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-29 19:27:28.581][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-29 19:27:28.582][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-08-29 19:27:28.584][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-29 19:27:28.585][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-29 19:27:28.585][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-29 19:27:28.587][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-29 19:27:28.587][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-29 19:27:28.587][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-29 19:27:28.587][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-29 19:27:28.587][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-29 19:27:28.588][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-29 19:27:28.589][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-29 19:27:28.590][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-29 19:27:28.591][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-29 19:27:28.592][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-29 19:27:28.593][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-29 19:27:28.594][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-29 19:27:28.595][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-29 19:27:28.596][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-29 19:27:28.597][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-29 19:27:28.598][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-29 19:27:28.598][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-29 19:27:28.600][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-08-29 19:27:28.601][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-29 19:27:28.603][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-08-29 19:27:28.604][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-29 19:27:28.605][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-29 19:27:28.606][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-29 19:27:28.607][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-29 19:27:28.608][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-29 19:27:28.609][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-29 19:27:28.610][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-29 19:27:28.611][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-29 19:27:28.613][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-29 19:27:28.613][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-08-29 19:27:28.615][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-29 19:27:28.616][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-29 19:27:28.617][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-29 19:27:28.618][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-08-29 19:27:28.619][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-29 19:27:28.620][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-29 19:27:28.620][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-29 19:27:28.621][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-29 19:27:28.622][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-29 19:27:28.623][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-29 19:27:28.624][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-29 19:27:28.625][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-29 19:27:28.626][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-29 19:27:28.627][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-29 19:27:28.628][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-29 19:27:28.629][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-29 19:27:28.630][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-08-29 19:27:28.632][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-29 19:27:28.633][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-08-29 19:27:28.634][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-29 19:27:28.635][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-29 19:27:28.636][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-29 19:27:28.637][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-29 19:27:28.639][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-29 19:27:28.640][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-29 19:27:28.641][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-29 19:27:28.643][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-29 19:27:28.644][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-29 19:27:28.646][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-08-29 19:27:28.647][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-29 19:27:28.648][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-29 19:27:28.649][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-29 19:27:28.651][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-08-29 19:27:28.652][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-29 19:27:28.653][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-29 19:27:28.654][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-29 19:27:28.656][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-29 19:27:28.657][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-29 19:27:28.658][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-29 19:27:28.659][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-29 19:27:28.660][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-29 19:27:28.662][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-29 19:27:28.663][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-29 19:27:28.664][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-29 19:27:28.665][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-29 19:27:28.666][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-29 19:27:28.667][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:28.668][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:28.669][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:28.670][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:28.671][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:28.671][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:28.672][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[2025-08-29 19:27:28.673][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:28.675][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:28.676][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:28.677][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:28.678][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:28.679][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:28.680][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:28.682][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:28.683][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:28.684][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:28.684][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:28.685][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:28.686][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:28.687][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:28.688][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:28.689][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:28.689][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:28.690][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:28.691][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:28.692][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:28.693][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:28.694][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:28.695][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:28.696][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:28.697][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:28.698][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:28.699][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:28.700][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:28.701][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:28.702][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:28.703][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:28.704][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:28.705][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:28.706][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:28.707][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:28.708][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:28.709][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:28.710][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:28.711][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:28.712][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:28.713][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:28.714][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:28.715][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:28.716][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:28.723][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:28.724][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:28.725][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:28.726][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:28.727][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:28.728][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[2025-08-29 19:27:28.729][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:28.730][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:28.730][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:28.731][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:28.732][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[2025-08-29 19:27:28.733][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:28.734][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:28.735][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:28.736][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:28.737][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:28.738][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:28.739][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:28.740][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:28.741][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:28.742][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[2025-08-29 19:27:28.743][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:28.744][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:28.744][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:28.745][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:28.746][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[2025-08-29 19:27:28.747][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:28.748][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:28.749][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:28.750][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:28.751][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:28.752][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-08-29 19:27:28.753][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-08-29 19:27:28.755][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-08-29 19:27:28.756][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-08-29 19:27:28.758][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-08-29 19:27:28.759][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-08-29 19:27:28.761][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-08-29 19:27:28.762][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-08-29 19:27:28.764][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-08-29 19:27:28.765][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-08-29 19:27:28.767][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-08-29 19:27:28.768][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-08-29 19:27:28.769][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-08-29 19:27:28.771][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-08-29 19:27:28.772][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-08-29 19:27:28.774][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-08-29 19:27:28.775][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-08-29 19:27:28.777][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-08-29 19:27:28.779][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-08-29 19:27:28.780][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-08-29 19:27:28.782][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-08-29 19:27:28.784][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-08-29 19:27:28.785][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-08-29 19:27:28.787][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-08-29 19:27:28.789][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-08-29 19:27:28.791][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-08-29 19:27:28.793][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-08-29 19:27:28.794][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-08-29 19:27:28.796][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-08-29 19:27:28.798][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-08-29 19:27:28.799][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-08-29 19:27:28.800][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-08-29 19:27:28.802][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-08-29 19:27:28.804][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-08-29 19:27:28.805][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-08-29 19:27:28.806][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-08-29 19:27:28.808][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-08-29 19:27:28.809][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-08-29 19:27:28.811][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-08-29 19:27:28.813][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-08-29 19:27:28.815][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-08-29 19:27:28.816][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-08-29 19:27:28.817][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-08-29 19:27:28.819][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-08-29 19:27:28.820][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-08-29 19:27:28.821][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-08-29 19:27:28.823][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-08-29 19:27:28.824][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-08-29 19:27:28.825][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-08-29 19:27:28.827][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-08-29 19:27:28.828][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-08-29 19:27:28.830][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-08-29 19:27:28.831][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-08-29 19:27:28.833][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-08-29 19:27:28.834][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-08-29 19:27:28.836][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-08-29 19:27:28.837][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-08-29 19:27:28.838][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-08-29 19:27:28.840][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-08-29 19:27:28.841][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-08-29 19:27:28.842][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-08-29 19:27:28.844][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-08-29 19:27:28.845][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-08-29 19:27:28.847][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-08-29 19:27:28.849][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-08-29 19:27:28.851][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-08-29 19:27:28.852][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-08-29 19:27:28.853][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-08-29 19:27:28.854][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-08-29 19:27:28.856][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-08-29 19:27:28.857][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-08-29 19:27:28.858][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-08-29 19:27:28.860][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-08-29 19:27:28.861][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-08-29 19:27:28.863][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-08-29 19:27:28.864][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-08-29 19:27:28.865][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-08-29 19:27:28.867][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-08-29 19:27:28.868][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-08-29 19:27:28.870][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-08-29 19:27:28.872][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-08-29 19:27:28.873][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-08-29 19:27:28.875][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-08-29 19:27:28.876][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-08-29 19:27:28.878][initialize] This is biodb version 1.17.1.
biodb.DEBUG[2025-08-29 19:27:28.879][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-29 19:27:28.880][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:28.881][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:28.882][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:28.883][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:28.884][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:28.884][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:28.885][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:28.886][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:28.887][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:28.889][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:28.890][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[2025-08-29 19:27:28.890][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:28.891][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:28.892][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:28.893][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:28.894][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:28.895][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:28.896][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:28.897][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:28.899][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:28.900][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:28.901][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:28.902][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:28.903][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:28.904][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:28.905][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:28.906][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:28.907][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:28.908][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:28.909][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:28.910][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:28.912][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:28.913][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:28.914][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:28.914][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:28.915][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:28.916][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:28.917][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:28.918][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[2025-08-29 19:27:28.919][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:28.920][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:28.921][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:28.922][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:28.923][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:28.924][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:28.926][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:28.927][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:28.928][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:28.929][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:28.930][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:28.931][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:28.932][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:28.933][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[2025-08-29 19:27:28.934][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:28.935][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:28.937][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:28.938][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:28.939][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:28.940][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:28.942][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:28.942][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:28.943][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:28.944][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:28.945][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:28.946][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:28.947][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:28.947][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:28.948][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:28.949][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:28.951][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:28.952][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:28.953][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:28.954][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:28.955][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[2025-08-29 19:27:28.956][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:28.957][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:28.959][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:28.960][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:28.961][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:28.962][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:28.963][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:28.964][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:28.965][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:28.966][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:28.966][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:28.967][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:28.968][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:28.969][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[2025-08-29 19:27:28.971][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:28.972][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:28.972][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:28.973][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:28.975][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:28.976][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:28.977][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:28.977][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:28.978][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:28.979][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:28.980][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:28.981][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:28.983][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:28.983][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:28.985][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:28.986][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:28.987][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:28.988][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:28.989][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:28.990][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:28.991][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:28.992][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:28.993][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:28.995][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:28.996][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:28.997][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:28.998][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:28.999][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:29.001][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-08-29 19:27:29.003][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-08-29 19:27:29.006][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-29 19:27:29.007][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-08-29 19:27:29.009][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-29 19:27:29.010][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-29 19:27:29.011][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-29 19:27:29.012][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-29 19:27:29.014][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-08-29 19:27:29.015][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-08-29 19:27:29.016][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-08-29 19:27:29.017][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-29 19:27:29.018][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-29 19:27:29.018][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-08-29 19:27:29.020][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-29 19:27:29.021][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-08-29 19:27:29.021][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-08-29 19:27:29.021][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-08-29 19:27:29.021][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-08-29 19:27:29.021][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-08-29 19:27:29.021][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-08-29 19:27:29.021][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-08-29 19:27:29.021][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-08-29 19:27:29.021][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-08-29 19:27:29.021][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-08-29 19:27:29.021][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-08-29 19:27:29.022][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-08-29 19:27:29.024][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-29 19:27:29.024][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-29 19:27:29.024][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-29 19:27:29.025][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-08-29 19:27:29.026][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-29 19:27:29.028][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-29 19:27:29.029][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-29 19:27:29.030][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-29 19:27:29.032][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-29 19:27:29.033][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-29 19:27:29.034][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-29 19:27:29.034][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-08-29 19:27:29.035][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-29 19:27:29.037][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-29 19:27:29.038][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-08-29 19:27:29.039][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-08-29 19:27:29.039][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-08-29 19:27:29.041][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-08-29 19:27:29.051][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-08-29 19:27:29.053][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-08-29 19:27:29.054][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-08-29 19:27:29.056][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-08-29 19:27:29.057][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-08-29 19:27:29.061][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-08-29 19:27:29.067][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-08-29 19:27:29.069][biodb::testThat]
biodb.INFO [2025-08-29 19:27:29.070][biodb::testThat] Running test function  test.chebi.wsGetLiteEntity  (" Web service getLiteEntity works fine. ").
biodb.INFO [2025-08-29 19:27:29.070][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-29 19:27:29.071][biodb::testThat]
sched.DEBUG[2025-08-29 19:27:29.073][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-08-29 19:27:29.075][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-29 19:27:29.079][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-08-29 19:27:29.081][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-08-29 19:27:29.085][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI ID&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-08-29 19:27:29.088][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-29 19:27:29.091][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/45b8073beb9f4a9f751edf98e80ca9dd.content.
sched.DEBUG[2025-08-29 19:27:29.092][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.INFO [2025-08-29 19:27:29.102][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-08-29 19:27:29.103][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-08-29 19:27:29.105][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-08-29 19:27:29.106][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:29.107][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:29.108][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:29.109][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:29.111][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:29.112][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-08-29 19:27:29.116][biodb::testContext]
biodb.INFO [2025-08-29 19:27:29.117][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-29 19:27:29.119][biodb::testContext] Test context - Non regression tests
biodb.INFO [2025-08-29 19:27:29.120][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-29 19:27:29.121][biodb::testContext]
biodb.INFO [2025-08-29 19:27:29.123][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.1.
biodb.DEBUG[2025-08-29 19:27:29.125][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-08-29 19:27:29.129][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-29 19:27:29.130][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-08-29 19:27:29.131][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-08-29 19:27:29.132][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:29.132][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:29.133][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:29.134][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-08-29 19:27:29.135][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-08-29 19:27:29.136][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:29.136][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:29.137][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:29.138][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-08-29 19:27:29.139][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-08-29 19:27:29.140][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:29.141][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:29.142][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:29.143][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-08-29 19:27:29.144][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-08-29 19:27:29.146][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-08-29 19:27:29.147][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:29.148][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:29.149][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:29.150][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-08-29 19:27:29.151][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-08-29 19:27:29.152][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-08-29 19:27:29.153][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:29.154][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:29.155][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:29.156][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-08-29 19:27:29.158][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-08-29 19:27:29.159][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:29.160][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:29.161][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:29.162][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-08-29 19:27:29.163][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-08-29 19:27:29.164][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-08-29 19:27:29.164][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:29.165][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:29.166][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:29.167][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-08-29 19:27:29.169][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-08-29 19:27:29.170][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:29.171][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:29.172][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:29.173][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-08-29 19:27:29.175][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-08-29 19:27:29.176][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-08-29 19:27:29.177][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:29.178][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:29.179][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:29.180][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-08-29 19:27:29.181][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-08-29 19:27:29.182][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-08-29 19:27:29.183][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-08-29 19:27:29.184][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-08-29 19:27:29.185][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-08-29 19:27:29.186][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:29.187][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:29.188][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:29.189][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-08-29 19:27:29.190][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-08-29 19:27:29.191][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:29.192][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:29.193][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:29.194][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-08-29 19:27:29.195][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-08-29 19:27:29.196][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:29.198][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:29.199][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:29.200][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-08-29 19:27:29.201][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-08-29 19:27:29.202][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:29.203][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:29.204][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:29.205][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-08-29 19:27:29.206][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-08-29 19:27:29.207][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-08-29 19:27:29.208][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:29.209][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:29.210][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:29.212][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-08-29 19:27:29.213][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-08-29 19:27:29.235][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-08-29 19:27:29.236][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:29.237][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:29.238][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:29.240][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-08-29 19:27:29.241][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-08-29 19:27:29.242][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-08-29 19:27:29.243][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:29.245][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:29.246][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:29.247][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-08-29 19:27:29.249][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-29 19:27:29.250][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-08-29 19:27:29.251][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-29 19:27:29.252][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-29 19:27:29.253][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-29 19:27:29.254][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-29 19:27:29.256][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-29 19:27:29.257][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-29 19:27:29.258][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-29 19:27:29.259][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-29 19:27:29.261][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-29 19:27:29.262][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-08-29 19:27:29.263][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-29 19:27:29.264][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-29 19:27:29.265][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-29 19:27:29.265][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-29 19:27:29.265][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-29 19:27:29.265][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-29 19:27:29.265][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-29 19:27:29.265][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-29 19:27:29.267][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-29 19:27:29.267][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-29 19:27:29.268][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-29 19:27:29.269][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-29 19:27:29.270][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-29 19:27:29.271][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-29 19:27:29.272][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-29 19:27:29.273][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-29 19:27:29.274][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-29 19:27:29.275][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-29 19:27:29.276][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-29 19:27:29.277][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-29 19:27:29.278][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-08-29 19:27:29.279][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-29 19:27:29.280][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-08-29 19:27:29.281][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-29 19:27:29.282][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-29 19:27:29.283][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-29 19:27:29.284][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-29 19:27:29.286][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-29 19:27:29.287][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-29 19:27:29.288][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-29 19:27:29.289][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-29 19:27:29.290][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-29 19:27:29.291][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-08-29 19:27:29.292][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-29 19:27:29.293][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-29 19:27:29.294][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-29 19:27:29.295][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-29 19:27:29.295][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-29 19:27:29.295][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-29 19:27:29.295][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-29 19:27:29.295][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-29 19:27:29.296][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-29 19:27:29.297][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-29 19:27:29.298][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-29 19:27:29.299][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-29 19:27:29.300][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-29 19:27:29.302][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-29 19:27:29.303][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-29 19:27:29.304][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-29 19:27:29.306][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-29 19:27:29.307][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-29 19:27:29.308][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-29 19:27:29.309][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-29 19:27:29.310][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-08-29 19:27:29.312][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-29 19:27:29.313][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-08-29 19:27:29.314][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-29 19:27:29.314][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-29 19:27:29.315][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-29 19:27:29.316][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-29 19:27:29.317][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-29 19:27:29.318][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-29 19:27:29.320][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-29 19:27:29.321][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-29 19:27:29.322][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-29 19:27:29.324][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-08-29 19:27:29.325][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-29 19:27:29.326][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-29 19:27:29.327][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-29 19:27:29.328][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-08-29 19:27:29.329][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-29 19:27:29.330][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-29 19:27:29.331][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-29 19:27:29.332][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-29 19:27:29.333][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-29 19:27:29.334][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-29 19:27:29.336][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-29 19:27:29.337][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-29 19:27:29.338][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-29 19:27:29.338][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-29 19:27:29.339][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-29 19:27:29.341][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-29 19:27:29.342][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-08-29 19:27:29.344][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-29 19:27:29.345][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-08-29 19:27:29.346][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-29 19:27:29.347][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-29 19:27:29.349][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-29 19:27:29.350][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-29 19:27:29.351][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-29 19:27:29.352][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-29 19:27:29.353][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-29 19:27:29.354][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-29 19:27:29.355][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-29 19:27:29.357][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-08-29 19:27:29.358][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-29 19:27:29.359][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-29 19:27:29.360][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-29 19:27:29.361][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-08-29 19:27:29.362][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-29 19:27:29.362][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-29 19:27:29.363][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-29 19:27:29.364][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-29 19:27:29.365][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-29 19:27:29.366][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-29 19:27:29.367][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-29 19:27:29.368][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-29 19:27:29.369][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-29 19:27:29.370][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-29 19:27:29.371][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-29 19:27:29.372][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-29 19:27:29.374][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-29 19:27:29.375][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:29.376][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:29.377][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:29.378][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:29.379][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:29.381][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:29.382][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:29.383][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:29.384][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:29.385][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:29.386][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:29.387][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:29.388][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:29.389][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:29.390][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:29.391][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:29.392][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:29.393][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:29.394][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:29.395][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:29.396][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:29.396][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:29.397][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:29.398][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:29.399][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:29.406][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:29.407][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:29.407][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:29.408][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:29.409][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:29.410][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:29.412][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:29.413][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:29.414][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:29.416][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:29.417][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:29.419][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:29.420][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:29.421][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:29.422][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:29.423][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:29.424][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:29.425][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:29.426][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:29.426][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:29.427][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:29.428][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[2025-08-29 19:27:29.429][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:29.430][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:29.430][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:29.431][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:29.432][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[2025-08-29 19:27:29.433][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:29.434][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:29.435][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:29.436][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:29.437][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[2025-08-29 19:27:29.438][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:29.439][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:29.440][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:29.441][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:29.441][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[2025-08-29 19:27:29.442][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:29.444][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:29.445][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:29.446][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:29.447][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[2025-08-29 19:27:29.448][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:29.448][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:29.449][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:29.450][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:29.451][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.DEBUG[2025-08-29 19:27:29.452][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:29.453][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:29.454][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:29.455][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:29.456][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:29.458][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:29.459][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:29.460][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:29.461][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:29.462][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:29.463][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-08-29 19:27:29.464][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-08-29 19:27:29.466][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-08-29 19:27:29.467][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-08-29 19:27:29.468][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-08-29 19:27:29.469][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-08-29 19:27:29.470][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-08-29 19:27:29.472][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-08-29 19:27:29.473][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-08-29 19:27:29.474][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-08-29 19:27:29.476][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-08-29 19:27:29.477][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-08-29 19:27:29.478][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-08-29 19:27:29.479][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-08-29 19:27:29.481][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-08-29 19:27:29.482][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-08-29 19:27:29.483][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-08-29 19:27:29.484][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-08-29 19:27:29.485][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-08-29 19:27:29.487][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-08-29 19:27:29.488][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-08-29 19:27:29.490][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-08-29 19:27:29.492][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-08-29 19:27:29.494][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-08-29 19:27:29.495][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-08-29 19:27:29.497][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-08-29 19:27:29.498][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-08-29 19:27:29.499][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-08-29 19:27:29.501][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-08-29 19:27:29.502][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-08-29 19:27:29.504][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-08-29 19:27:29.505][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-08-29 19:27:29.506][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-08-29 19:27:29.508][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-08-29 19:27:29.509][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-08-29 19:27:29.510][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-08-29 19:27:29.512][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-08-29 19:27:29.514][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-08-29 19:27:29.516][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-08-29 19:27:29.517][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-08-29 19:27:29.518][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-08-29 19:27:29.519][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-08-29 19:27:29.520][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-08-29 19:27:29.522][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-08-29 19:27:29.523][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-08-29 19:27:29.524][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-08-29 19:27:29.526][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-08-29 19:27:29.528][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-08-29 19:27:29.531][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-08-29 19:27:29.532][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-08-29 19:27:29.534][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-08-29 19:27:29.535][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-08-29 19:27:29.536][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-08-29 19:27:29.538][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-08-29 19:27:29.539][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-08-29 19:27:29.541][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-08-29 19:27:29.542][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-08-29 19:27:29.544][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-08-29 19:27:29.546][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-08-29 19:27:29.548][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-08-29 19:27:29.549][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-08-29 19:27:29.551][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-08-29 19:27:29.553][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-08-29 19:27:29.554][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-08-29 19:27:29.556][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-08-29 19:27:29.557][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-08-29 19:27:29.559][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-08-29 19:27:29.561][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-08-29 19:27:29.563][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-08-29 19:27:29.565][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-08-29 19:27:29.566][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-08-29 19:27:29.567][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-08-29 19:27:29.569][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-08-29 19:27:29.570][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-08-29 19:27:29.571][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-08-29 19:27:29.572][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-08-29 19:27:29.573][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-08-29 19:27:29.575][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-08-29 19:27:29.576][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-08-29 19:27:29.577][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-08-29 19:27:29.578][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-08-29 19:27:29.579][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-08-29 19:27:29.580][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-08-29 19:27:29.582][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-08-29 19:27:29.585][initialize] This is biodb version 1.17.1.
biodb.DEBUG[2025-08-29 19:27:29.586][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-29 19:27:29.587][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:29.589][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:29.590][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:29.591][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:29.592][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:29.593][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:29.594][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:29.595][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:29.596][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:29.597][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:29.597][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:29.598][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:29.599][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:29.600][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:29.602][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:29.603][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:29.604][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:29.605][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:29.606][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:29.607][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:29.608][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:29.609][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:29.610][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:29.611][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:29.612][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:29.613][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:29.614][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:29.615][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:29.616][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:29.617][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:29.618][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:29.619][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:29.620][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:29.621][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:29.622][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:29.623][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:29.623][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:29.624][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:29.625][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:29.626][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:29.627][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:29.628][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:29.629][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:29.629][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:29.630][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:29.631][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:29.632][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:29.633][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:29.633][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:29.634][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:29.635][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:29.636][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:29.637][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.DEBUG[2025-08-29 19:27:29.638][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:29.640][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:29.640][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:29.641][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:29.642][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:29.643][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:29.645][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:29.646][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:29.647][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:29.648][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:29.649][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:29.649][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:29.651][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:29.652][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:29.653][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:29.654][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:29.655][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:29.656][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:29.657][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:29.658][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:29.659][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:29.661][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:29.661][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:29.663][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:29.664][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:29.665][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:29.666][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:29.668][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:29.669][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:29.670][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:29.671][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:29.672][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:29.673][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:29.675][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:29.676][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:29.677][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:29.678][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:29.679][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:29.680][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:29.681][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:29.681][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:29.683][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:29.684][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:29.685][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:29.686][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:29.687][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:29.689][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:29.690][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:29.691][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:29.692][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:29.693][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:29.695][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:29.696][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:29.697][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:29.698][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:29.699][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:29.700][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-29 19:27:29.701][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:29.702][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:29.702][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:29.703][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:29.704][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:29.705][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-29 19:27:29.707][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-08-29 19:27:29.709][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-08-29 19:27:29.710][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-29 19:27:29.712][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-08-29 19:27:29.720][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-29 19:27:29.721][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-29 19:27:29.722][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-29 19:27:29.722][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-29 19:27:29.723][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-08-29 19:27:29.725][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-08-29 19:27:29.726][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-08-29 19:27:29.727][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-29 19:27:29.729][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-29 19:27:29.730][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-08-29 19:27:29.731][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-29 19:27:29.732][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-08-29 19:27:29.732][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-08-29 19:27:29.732][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-08-29 19:27:29.732][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-08-29 19:27:29.732][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-08-29 19:27:29.732][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-08-29 19:27:29.732][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-08-29 19:27:29.732][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-08-29 19:27:29.732][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-08-29 19:27:29.732][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-08-29 19:27:29.732][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-08-29 19:27:29.734][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-08-29 19:27:29.735][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-29 19:27:29.735][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-29 19:27:29.735][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-29 19:27:29.736][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-08-29 19:27:29.737][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-29 19:27:29.738][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-29 19:27:29.739][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-29 19:27:29.741][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-29 19:27:29.741][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-29 19:27:29.742][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-29 19:27:29.743][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-29 19:27:29.743][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-08-29 19:27:29.745][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-29 19:27:29.745][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-29 19:27:29.746][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-08-29 19:27:29.747][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-08-29 19:27:29.747][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-08-29 19:27:29.748][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-08-29 19:27:29.750][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-08-29 19:27:29.752][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-08-29 19:27:29.754][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-08-29 19:27:29.756][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-08-29 19:27:29.757][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-08-29 19:27:29.762][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-08-29 19:27:29.771][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-08-29 19:27:29.773][biodb::testThat]
biodb.INFO [2025-08-29 19:27:29.774][biodb::testThat] Running test function  test.chebi.encoding.issue.in.xml  (" ChEBI encoding issue in XML is handled. ").
biodb.INFO [2025-08-29 19:27:29.776][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-29 19:27:29.777][biodb::testThat]
sched.DEBUG[2025-08-29 19:27:29.780][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-08-29 19:27:29.783][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-29 19:27:29.787][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-08-29 19:27:29.788][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-08-29 19:27:29.793][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI ID&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-08-29 19:27:29.797][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-29 19:27:29.799][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/45b8073beb9f4a9f751edf98e80ca9dd.content.
sched.DEBUG[2025-08-29 19:27:29.801][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-29 19:27:29.806][private$loadEntries] Creating entries from ids [1]: "2571".
biodb.DEBUG[2025-08-29 19:27:29.815][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-29 19:27:29.817][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-29 19:27:29.825][FUN] Found encoding UTF-8 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2571.xml.
biodb.DEBUG[2025-08-29 19:27:29.827][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-29 19:27:29.828][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-29 19:27:29.830][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-29 19:27:29.832][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-29 19:27:29.832][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:29.833][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:29.839][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:29.840][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:29.841][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:29.842][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-29 19:27:29.846][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:29.847][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:29.849][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:29.850][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:29.852][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:29.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:29.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:29.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:29.858][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-29 19:27:29.859][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-29 19:27:29.861][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:29.862][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:29.863][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-29 19:27:29.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-29 19:27:29.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:29.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:29.868][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-29 19:27:29.869][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-29 19:27:29.870][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:29.871][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:29.873][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-29 19:27:29.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-29 19:27:29.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:29.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:29.877][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-29 19:27:29.878][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-29 19:27:29.879][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:29.880][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:29.882][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-29 19:27:29.884][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-29 19:27:29.885][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:29.886][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:29.887][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-29 19:27:29.889][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-29 19:27:29.890][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:29.891][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:29.894][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-29 19:27:29.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-29 19:27:29.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:29.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:29.900][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-29 19:27:29.901][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:29.902][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:29.903][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:29.905][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-29 19:27:29.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-29 19:27:29.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:29.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:29.909][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:29.910][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:29.911][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:29.911][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:29.913][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:29.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-29 19:27:29.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:29.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:29.918][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-29 19:27:29.919][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-29 19:27:29.920][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:29.922][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:29.924][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-29 19:27:29.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-29 19:27:29.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:29.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:29.928][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-29 19:27:29.929][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-29 19:27:29.930][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:29.930][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:29.932][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-29 19:27:29.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-29 19:27:29.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:29.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:29.935][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-29 19:27:29.936][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-29 19:27:29.937][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:29.938][ef$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:29.939][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-29 19:27:29.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-29 19:27:29.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:29.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:29.943][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:29.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:29.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:29.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:29.948][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:29.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:29.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:29.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:29.953][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:29.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:29.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:29.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:29.956][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-29 19:27:29.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-29 19:27:29.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:29.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:29.960][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:29.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:29.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:29.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:29.963][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:29.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:29.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:29.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:29.967][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:29.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:29.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:29.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:29.971][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:29.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:29.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:29.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:29.975][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:29.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:29.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:29.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-29 19:27:29.979][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-29 19:27:29.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-29 19:27:29.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-29 19:27:29.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-29 19:27:29.983][self$createEntryFromContent] Accession numbers: 2571.
biodb.INFO [2025-08-29 19:27:29.988][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-08-29 19:27:29.989][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-08-29 19:27:29.990][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-08-29 19:27:29.991][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-29 19:27:29.992][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-29 19:27:29.992][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-29 19:27:29.993][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-29 19:27:29.995][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-08-29 19:27:29.996][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".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 357 ]
> 
> proc.time()
   user  system elapsed 
 18.935   1.168  22.952

Example timings

biodbChebi.Rcheck/biodbChebi-Ex.timings

nameusersystemelapsed
ChebiConn2.6011.1803.994
ChebiEntry0.3530.0230.395