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This page was generated on 2025-09-23 12:04 -0400 (Tue, 23 Sep 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.3 LTS)x86_644.5.1 Patched (2025-08-23 r88802) -- "Great Square Root" 4816
lconwaymacOS 12.7.1 Montereyx86_644.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" 4605
kjohnson3macOS 13.7.7 Venturaarm644.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" 4549
taishanLinux (openEuler 24.03 LTS)aarch644.5.0 (2025-04-11) -- "How About a Twenty-Six" 4560
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 207/2334HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
biodbChebi 1.15.1  (landing page)
Pierrick Roger
Snapshot Date: 2025-09-22 13:45 -0400 (Mon, 22 Sep 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    ERROR  
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: 2025-09-22 19:37:20 -0400 (Mon, 22 Sep 2025)
EndedAt: 2025-09-22 19:38:48 -0400 (Mon, 22 Sep 2025)
EllapsedTime: 87.7 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 Patched (2025-09-10 r88807)
* 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 Patched (2025-09-10 r88807) -- "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 [2025-09-22 19:38:18.234][biodb::testContext]
biodb.INFO [2025-09-22 19:38:18.239][biodb::testContext] ********************************************************************************
biodb.INFO [2025-09-22 19:38:18.241][biodb::testContext] Test context - Generic tests
biodb.INFO [2025-09-22 19:38:18.242][biodb::testContext] ********************************************************************************
biodb.INFO [2025-09-22 19:38:18.244][biodb::testContext]
biodb.INFO [2025-09-22 19:38:18.253][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.1.
biodb.DEBUG[2025-09-22 19:38:18.255][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-09-22 19:38:18.265][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-22 19:38:18.267][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-09-22 19:38:18.269][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-09-22 19:38:18.270][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:18.271][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:18.272][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:18.274][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-09-22 19:38:18.296][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-09-22 19:38:18.297][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:18.298][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:18.299][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:18.301][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-09-22 19:38:18.302][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-09-22 19:38:18.303][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:18.304][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:18.305][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:18.306][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-09-22 19:38:18.308][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-09-22 19:38:18.309][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-09-22 19:38:18.310][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:18.311][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:18.312][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:18.313][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-09-22 19:38:18.314][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-09-22 19:38:18.315][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-09-22 19:38:18.316][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:18.317][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:18.318][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:18.319][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-09-22 19:38:18.320][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-09-22 19:38:18.321][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:18.322][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:18.323][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:18.325][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-09-22 19:38:18.326][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-09-22 19:38:18.327][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-09-22 19:38:18.329][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:18.330][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:18.331][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:18.332][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-09-22 19:38:18.334][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-09-22 19:38:18.335][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:18.336][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:18.337][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[2025-09-22 19:38:18.339][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-09-22 19:38:18.340][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-09-22 19:38:18.341][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-09-22 19:38:18.342][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:18.343][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:18.344][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:18.345][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-09-22 19:38:18.347][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-09-22 19:38:18.348][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-09-22 19:38:18.349][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-09-22 19:38:18.350][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-09-22 19:38:18.351][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-09-22 19:38:18.352][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:18.353][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:18.354][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:18.355][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-09-22 19:38:18.356][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-09-22 19:38:18.357][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:18.358][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:18.359][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:18.360][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-09-22 19:38:18.361][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-09-22 19:38:18.362][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:18.363][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:18.364][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:18.366][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-09-22 19:38:18.367][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-09-22 19:38:18.368][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:18.369][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:18.370][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:18.371][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-09-22 19:38:18.372][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-09-22 19:38:18.374][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-09-22 19:38:18.375][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:18.376][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:18.377][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:18.379][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-09-22 19:38:18.380][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-09-22 19:38:18.405][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-09-22 19:38:18.407][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:18.408][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:18.410][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:18.411][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-09-22 19:38:18.413][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-09-22 19:38:18.414][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-09-22 19:38:18.416][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:18.417][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:18.417][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:18.422][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-09-22 19:38:18.477][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-22 19:38:18.500][self$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[2025-09-22 19:38:18.501][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-22 19:38:18.503][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-22 19:38:18.504][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-22 19:38:18.506][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-22 19:38:18.506][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-22 19:38:18.508][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-22 19:38:18.509][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-09-22 19:38:18.510][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-22 19:38:18.512][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-22 19:38:18.513][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-09-22 19:38:18.514][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-22 19:38:18.516][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-22 19:38:18.517][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-22 19:38:18.518][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-22 19:38:18.518][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-22 19:38:18.518][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-22 19:38:18.518][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-09-22 19:38:18.518][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-09-22 19:38:18.519][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-22 19:38:18.521][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-22 19:38:18.522][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-22 19:38:18.523][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-22 19:38:18.524][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-22 19:38:18.525][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-22 19:38:18.527][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-22 19:38:18.528][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-22 19:38:18.529][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-22 19:38:18.530][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-22 19:38:18.531][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-22 19:38:18.532][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-22 19:38:18.534][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-09-22 19:38:18.536][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-22 19:38:18.537][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-09-22 19:38:18.539][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-22 19:38:18.540][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-22 19:38:18.541][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-22 19:38:18.542][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-22 19:38:18.544][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-22 19:38:18.545][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-22 19:38:18.547][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-09-22 19:38:18.548][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-22 19:38:18.549][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-22 19:38:18.551][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-09-22 19:38:18.552][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-22 19:38:18.554][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-22 19:38:18.555][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-22 19:38:18.557][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-22 19:38:18.557][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-22 19:38:18.557][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-22 19:38:18.557][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-09-22 19:38:18.557][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-09-22 19:38:18.558][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-22 19:38:18.559][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-22 19:38:18.560][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-22 19:38:18.562][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-22 19:38:18.563][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-22 19:38:18.564][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-22 19:38:18.565][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-22 19:38:18.566][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-22 19:38:18.567][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-22 19:38:18.568][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-22 19:38:18.570][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-22 19:38:18.571][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-22 19:38:18.572][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-09-22 19:38:18.575][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-09-22 19:38:18.577][self$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[2025-09-22 19:38:18.579][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-22 19:38:18.582][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-22 19:38:18.583][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-22 19:38:18.585][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-22 19:38:18.586][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-22 19:38:18.588][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-22 19:38:18.589][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-09-22 19:38:18.590][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-22 19:38:18.592][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-09-22 19:38:18.593][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-09-22 19:38:18.594][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-22 19:38:18.596][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-22 19:38:18.597][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-22 19:38:18.598][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-09-22 19:38:18.600][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-22 19:38:18.601][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-22 19:38:18.602][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-22 19:38:18.603][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-22 19:38:18.605][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-22 19:38:18.605][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-22 19:38:18.607][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-22 19:38:18.608][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-22 19:38:18.609][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-22 19:38:18.610][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-22 19:38:18.612][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-22 19:38:18.613][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-22 19:38:18.615][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-09-22 19:38:18.617][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-09-22 19:38:18.618][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-09-22 19:38:18.619][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-22 19:38:18.620][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-22 19:38:18.621][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-22 19:38:18.622][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-22 19:38:18.624][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-22 19:38:18.625][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-22 19:38:18.626][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-09-22 19:38:18.627][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-22 19:38:18.629][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-09-22 19:38:18.630][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-09-22 19:38:18.631][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-22 19:38:18.632][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-22 19:38:18.633][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-22 19:38:18.635][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-09-22 19:38:18.636][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-22 19:38:18.637][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-22 19:38:18.638][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-22 19:38:18.640][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-22 19:38:18.641][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-22 19:38:18.642][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-22 19:38:18.643][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-22 19:38:18.644][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-22 19:38:18.646][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-22 19:38:18.647][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-22 19:38:18.648][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-22 19:38:18.650][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-22 19:38:18.654][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-22 19:38:18.656][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:18.657][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:18.658][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:18.659][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:18.660][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:18.662][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:18.663][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:18.664][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:18.665][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:18.666][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:18.667][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:18.669][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:18.670][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:18.671][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:18.672][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:18.673][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:18.674][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.DEBUG[2025-09-22 19:38:18.675][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:18.676][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:18.677][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:18.678][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:18.679][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:18.680][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:18.682][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:18.683][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:18.684][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:18.685][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:18.686][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:18.687][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:18.688][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:18.695][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:18.696][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.DEBUG[2025-09-22 19:38:18.697][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:18.698][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:18.699][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:18.700][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:18.701][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:18.702][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:18.703][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:18.704][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:18.705][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:18.706][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:18.707][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:18.708][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:18.709][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:18.710][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:18.711][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:18.712][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:18.713][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:18.714][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:18.715][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:18.716][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:18.718][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:18.719][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:18.720][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:18.721][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:18.723][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[2025-09-22 19:38:18.723][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:18.725][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:18.726][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:18.727][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:18.728][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[2025-09-22 19:38:18.729][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:18.731][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:18.732][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:18.733][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:18.734][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[2025-09-22 19:38:18.735][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:18.736][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:18.737][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:18.739][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:18.740][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[2025-09-22 19:38:18.741][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:18.742][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:18.743][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:18.745][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:18.746][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[2025-09-22 19:38:18.747][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:18.748][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:18.749][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:18.750][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:18.751][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[2025-09-22 19:38:18.753][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-09-22 19:38:18.759][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-09-22 19:38:18.761][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-09-22 19:38:18.763][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-09-22 19:38:18.765][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-09-22 19:38:18.767][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-09-22 19:38:18.769][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-09-22 19:38:18.770][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-09-22 19:38:18.772][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-09-22 19:38:18.774][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-09-22 19:38:18.775][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-09-22 19:38:18.777][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-09-22 19:38:18.779][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-09-22 19:38:18.781][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-09-22 19:38:18.782][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-09-22 19:38:18.784][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-09-22 19:38:18.786][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-09-22 19:38:18.788][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-09-22 19:38:18.789][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-09-22 19:38:18.791][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-09-22 19:38:18.793][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-09-22 19:38:18.794][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-09-22 19:38:18.796][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-09-22 19:38:18.798][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-09-22 19:38:18.800][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-09-22 19:38:18.802][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-09-22 19:38:18.804][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-09-22 19:38:18.806][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-09-22 19:38:18.808][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-09-22 19:38:18.810][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-09-22 19:38:18.811][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-09-22 19:38:18.813][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-09-22 19:38:18.815][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-09-22 19:38:18.817][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-09-22 19:38:18.818][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-09-22 19:38:18.820][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-09-22 19:38:18.822][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-09-22 19:38:18.824][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-09-22 19:38:18.826][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-09-22 19:38:18.828][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-09-22 19:38:18.829][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-09-22 19:38:18.831][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-09-22 19:38:18.833][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-09-22 19:38:18.835][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-09-22 19:38:18.837][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-09-22 19:38:18.839][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-09-22 19:38:18.841][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-09-22 19:38:18.843][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-09-22 19:38:18.845][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-09-22 19:38:18.847][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-09-22 19:38:18.848][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-09-22 19:38:18.850][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-09-22 19:38:18.852][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-09-22 19:38:18.853][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-09-22 19:38:18.855][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-09-22 19:38:18.857][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-09-22 19:38:18.859][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-09-22 19:38:18.861][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-09-22 19:38:18.863][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-09-22 19:38:18.864][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-09-22 19:38:18.866][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-09-22 19:38:18.868][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-09-22 19:38:18.869][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-09-22 19:38:18.870][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-09-22 19:38:18.872][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-09-22 19:38:18.874][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-09-22 19:38:18.875][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-09-22 19:38:18.877][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-09-22 19:38:18.878][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-09-22 19:38:18.880][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-09-22 19:38:18.881][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-09-22 19:38:18.883][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-09-22 19:38:18.884][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-09-22 19:38:18.886][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-09-22 19:38:18.887][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-09-22 19:38:18.888][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-09-22 19:38:18.890][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-09-22 19:38:18.892][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-09-22 19:38:18.894][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-09-22 19:38:18.895][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-09-22 19:38:18.897][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-09-22 19:38:18.899][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-09-22 19:38:18.901][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-09-22 19:38:18.908][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-09-22 19:38:18.911][initialize] This is biodb version 1.17.1.
biodb.DEBUG[2025-09-22 19:38:18.916][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-22 19:38:18.917][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:18.918][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:18.920][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:18.921][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:18.935][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:18.937][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:18.938][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:18.939][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:18.940][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:18.941][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:18.943][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:18.944][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:18.945][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:18.946][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:18.947][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:18.948][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:18.949][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:18.950][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:18.951][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:18.953][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:18.954][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:18.955][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:18.956][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:18.957][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:18.959][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:18.960][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:18.961][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:18.962][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:18.963][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:18.964][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:18.965][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:18.966][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:18.967][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:18.968][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:18.970][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:18.971][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:18.972][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:18.973][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:18.974][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:18.976][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:18.977][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:18.978][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:18.979][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:18.980][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:18.981][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:18.982][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[2025-09-22 19:38:18.983][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:18.984][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:18.985][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:18.986][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:18.987][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:18.988][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:18.990][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:18.991][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:18.992][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:18.993][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:18.994][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:18.995][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:18.997][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:18.998][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:18.999][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:19.000][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:19.001][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:19.002][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:19.004][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:19.005][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:19.006][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:19.007][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:19.008][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:19.009][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:19.010][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:19.011][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:19.012][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:19.013][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:19.015][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:19.016][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:19.017][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:19.018][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:19.019][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:19.020][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:19.022][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:19.023][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:19.024][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:19.025][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:19.026][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:19.027][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:19.028][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:19.029][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:19.030][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:19.031][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:19.032][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:19.034][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:19.035][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:19.036][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:19.037][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:19.038][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:19.039][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:19.040][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:19.041][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:19.042][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:19.043][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:19.044][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:19.045][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:19.046][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:19.047][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:19.049][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:19.050][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:19.051][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:19.052][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.DEBUG[2025-09-22 19:38:19.054][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:19.055][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:19.056][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:19.057][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:19.058][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:19.060][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:19.061][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:19.063][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-09-22 19:38:19.078][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-09-22 19:38:19.081][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-22 19:38:19.082][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-09-22 19:38:19.084][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-22 19:38:19.085][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-22 19:38:19.086][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-22 19:38:19.087][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-22 19:38:19.089][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-09-22 19:38:19.090][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-09-22 19:38:19.091][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-09-22 19:38:19.092][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-22 19:38:19.094][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-22 19:38:19.095][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-09-22 19:38:19.096][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-22 19:38:19.098][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-09-22 19:38:19.098][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-09-22 19:38:19.098][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-09-22 19:38:19.098][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-09-22 19:38:19.098][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-09-22 19:38:19.098][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-09-22 19:38:19.098][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-09-22 19:38:19.098][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-09-22 19:38:19.098][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-09-22 19:38:19.098][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-09-22 19:38:19.098][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-09-22 19:38:19.099][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-09-22 19:38:19.101][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-22 19:38:19.101][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-22 19:38:19.101][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-22 19:38:19.102][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-09-22 19:38:19.104][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-22 19:38:19.105][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-22 19:38:19.106][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-22 19:38:19.107][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-22 19:38:19.108][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-22 19:38:19.109][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-22 19:38:19.111][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-09-22 19:38:19.111][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-09-22 19:38:19.112][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-22 19:38:19.114][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-22 19:38:19.115][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-09-22 19:38:19.116][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-09-22 19:38:19.116][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-09-22 19:38:19.125][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-09-22 19:38:19.145][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-09-22 19:38:19.148][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-09-22 19:38:19.150][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-09-22 19:38:19.152][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-09-22 19:38:19.155][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-09-22 19:38:19.190][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-09-22 19:38:19.220][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-09-22 19:38:19.233][biodb::testThat]
biodb.INFO [2025-09-22 19:38:19.234][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2025-09-22 19:38:19.235][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-22 19:38:19.237][biodb::testThat]
biodb.TRACE[2025-09-22 19:38:19.241][loadFileContents] Loaded 1 files from cache: [1]: "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2025-09-22 19:38:19.244][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-22 19:38:19.249][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-22 19:38:19.260][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:19.261][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:19.263][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:19.283][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:19.284][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:19.285][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:19.287][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:19.298][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:19.300][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:19.301][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:19.303][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:19.305][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:19.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:19.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:19.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:19.331][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 19:38:19.332][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 19:38:19.334][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:19.336][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:19.375][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 19:38:19.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 19:38:19.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:19.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:19.381][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 19:38:19.382][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 19:38:19.383][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:19.384][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:19.386][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 19:38:19.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 19:38:19.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:19.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:19.391][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 19:38:19.393][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 19:38:19.393][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:19.394][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:19.396][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 19:38:19.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 19:38:19.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:19.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:19.401][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 19:38:19.402][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 19:38:19.403][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:19.405][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:19.407][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 19:38:19.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 19:38:19.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:19.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:19.412][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-22 19:38:19.413][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-22 19:38:19.414][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:19.416][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:19.417][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-22 19:38:19.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-22 19:38:19.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:19.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:19.423][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 19:38:19.424][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:19.426][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:19.427][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:19.429][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 19:38:19.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:19.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:19.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:19.434][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:19.435][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:19.437][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:19.438][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:19.440][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:19.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:19.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:19.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:19.445][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-22 19:38:19.447][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 19:38:19.448][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:19.450][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:19.452][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-22 19:38:19.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 19:38:19.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:19.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:19.473][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 19:38:19.475][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 19:38:19.476][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:19.478][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:19.480][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 19:38:19.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 19:38:19.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:19.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:19.487][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 19:38:19.488][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 19:38:19.489][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:19.491][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:19.493][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 19:38:19.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 19:38:19.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:19.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:19.499][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:19.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:19.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:19.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:19.505][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:19.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:19.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:19.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:19.511][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:19.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:19.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:19.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:19.517][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:19.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:19.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:19.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:19.523][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:19.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:19.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:19.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:19.529][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:19.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:19.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:19.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:19.535][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:19.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:19.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:19.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:19.591][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:19.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:19.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:19.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:19.598][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:19.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:19.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:19.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:19.603][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:19.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:19.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:19.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:19.608][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2025-09-22 19:38:19.612][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 19:38:19.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 19:38:19.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:19.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:19.618][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 19:38:19.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 19:38:19.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:19.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:19.656][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 19:38:19.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 19:38:19.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:19.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:19.669][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 19:38:19.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 19:38:19.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:19.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:19.675][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:19.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:19.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:19.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:19.681][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:19.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:19.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:19.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:19.686][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-09-22 19:38:19.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-09-22 19:38:19.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:19.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:19.692][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-09-22 19:38:19.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-09-22 19:38:19.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:19.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:19.696][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-09-22 19:38:19.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-09-22 19:38:19.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:19.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:19.702][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-09-22 19:38:19.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-09-22 19:38:19.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:19.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:19.710][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:19.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:19.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:19.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:19.733][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:19.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:19.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:19.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:19.744][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:19.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:19.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:19.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:19.749][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:19.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:19.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:19.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:19.754][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:19.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:19.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:19.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:19.760][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:19.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:19.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:19.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:19.765][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:19.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:19.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:19.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:19.771][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:19.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:19.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:19.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:19.776][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:19.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:19.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:19.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:19.780][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:19.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:19.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:19.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:19.785][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:19.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:19.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:19.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:19.801][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:19.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:19.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:19.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:19.806][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:19.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:19.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:19.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:19.811][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:19.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:19.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:19.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:19.816][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:19.818][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:19.819][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:19.820][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:19.821][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:19.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:19.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:19.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:19.839][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:19.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:19.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:19.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:19.845][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:19.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:19.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:19.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:19.850][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:19.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:19.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:19.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:19.856][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:19.857][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:19.858][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:19.860][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:19.861][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:19.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:19.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:19.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:19.884][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-22 19:38:19.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 19:38:19.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:19.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:19.889][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-22 19:38:19.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 19:38:19.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:19.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:19.893][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-22 19:38:19.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 19:38:19.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:19.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:19.898][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-22 19:38:19.900][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 19:38:19.901][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:19.902][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:19.903][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-22 19:38:19.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 19:38:19.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:19.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:19.919][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 19:38:19.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 19:38:19.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:19.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:19.924][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 19:38:19.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 19:38:19.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:19.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:19.929][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 19:38:19.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 19:38:19.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:19.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:19.935][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 19:38:19.936][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 19:38:19.937][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:19.938][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:19.939][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 19:38:19.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 19:38:19.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:19.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:19.955][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:19.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:19.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:19.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:19.961][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:19.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:19.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:19.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:19.967][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:19.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:19.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:19.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:19.973][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:19.974][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:19.975][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:19.977][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:19.978][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:19.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:19.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:19.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:19.994][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:19.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:19.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:19.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:20.000][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:20.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:20.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:20.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:20.005][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:20.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:20.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:20.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:20.011][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:20.012][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:20.014][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:20.015][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:20.016][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:20.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:20.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:20.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:20.036][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 19:38:20.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 19:38:20.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:20.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:20.042][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 19:38:20.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 19:38:20.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:20.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:20.047][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 19:38:20.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 19:38:20.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:20.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:20.052][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 19:38:20.053][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 19:38:20.054][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:20.055][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:20.056][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 19:38:20.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 19:38:20.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:20.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:20.072][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-09-22 19:38:20.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 19:38:20.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:20.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:20.123][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-09-22 19:38:20.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 19:38:20.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:20.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:20.130][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-09-22 19:38:20.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 19:38:20.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:20.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:20.135][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-09-22 19:38:20.136][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 19:38:20.137][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:20.138][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:20.139][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-09-22 19:38:20.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 19:38:20.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:20.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:20.155][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-22 19:38:20.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-22 19:38:20.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:20.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:20.161][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-22 19:38:20.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-22 19:38:20.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:20.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:20.167][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-22 19:38:20.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-22 19:38:20.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:20.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:20.172][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-22 19:38:20.173][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-22 19:38:20.175][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:20.176][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:20.177][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-22 19:38:20.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-22 19:38:20.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:20.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:20.194][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 19:38:20.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 19:38:20.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:20.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:20.200][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 19:38:20.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 19:38:20.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:20.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:20.204][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 19:38:20.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 19:38:20.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:20.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:20.210][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 19:38:20.211][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 19:38:20.212][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:20.213][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:20.215][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 19:38:20.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 19:38:20.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:20.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:20.230][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 19:38:20.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 19:38:20.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:20.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:20.234][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 19:38:20.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 19:38:20.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:20.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:20.238][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 19:38:20.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 19:38:20.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:20.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:20.242][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 19:38:20.244][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 19:38:20.245][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:20.246][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:20.248][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 19:38:20.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 19:38:20.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:20.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:20.262][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 19:38:20.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 19:38:20.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:20.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:20.268][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 19:38:20.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 19:38:20.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:20.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:20.272][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 19:38:20.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 19:38:20.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:20.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:20.277][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 19:38:20.279][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 19:38:20.279][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:20.281][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:20.281][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 19:38:20.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 19:38:20.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:20.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:20.295][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:20.297][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:20.298][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:20.299][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:20.305][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 19:38:20.306][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 19:38:20.308][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:20.309][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:20.322][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 19:38:20.323][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 19:38:20.324][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:20.326][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:20.332][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 19:38:20.333][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 19:38:20.334][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:20.335][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:20.343][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 19:38:20.344][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 19:38:20.346][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:20.347][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:20.354][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-22 19:38:20.356][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-22 19:38:20.358][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:20.359][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:20.367][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:20.369][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:20.370][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:20.371][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:20.379][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:20.380][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:20.382][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:20.383][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:20.390][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-09-22 19:38:20.392][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 19:38:20.393][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:20.395][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:20.403][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-22 19:38:20.405][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 19:38:20.406][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:20.407][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:20.413][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 19:38:20.415][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 19:38:20.416][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:20.417][ef$get] fields variable is a list.
biodb.INFO [2025-09-22 19:38:20.428][biodb::testThat]
biodb.INFO [2025-09-22 19:38:20.429][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2025-09-22 19:38:20.431][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-22 19:38:20.432][biodb::testThat]
biodb.DEBUG[2025-09-22 19:38:20.450][private$loadEntries] Creating entries from ids [1]: "15440".
biodb.DEBUG[2025-09-22 19:38:20.453][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-22 19:38:20.457][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-22 19:38:20.463][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15440.xml.
biodb.DEBUG[2025-09-22 19:38:20.465][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-22 19:38:20.495][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-22 19:38:20.497][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-22 19:38:20.500][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:20.501][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:20.502][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:20.511][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:20.512][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:20.514][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:20.515][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:20.518][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:20.519][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:20.520][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:20.521][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:20.523][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:20.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:20.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:20.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:20.553][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 19:38:20.555][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 19:38:20.556][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:20.557][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:20.558][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 19:38:20.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 19:38:20.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:20.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:20.564][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 19:38:20.565][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 19:38:20.566][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:20.567][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:20.569][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 19:38:20.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 19:38:20.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:20.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:20.573][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 19:38:20.574][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 19:38:20.575][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:20.577][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:20.578][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 19:38:20.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 19:38:20.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:20.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:20.582][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 19:38:20.583][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 19:38:20.584][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:20.585][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:20.587][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 19:38:20.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 19:38:20.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:20.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:20.593][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-22 19:38:20.594][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-22 19:38:20.595][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:20.597][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:20.598][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-22 19:38:20.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-22 19:38:20.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:20.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:20.604][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 19:38:20.605][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:20.607][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:20.608][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:20.609][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 19:38:20.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:20.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:20.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:20.614][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:20.615][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:20.616][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:20.618][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:20.620][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:20.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:20.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:20.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:20.625][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-22 19:38:20.626][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 19:38:20.627][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:20.628][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:20.630][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-22 19:38:20.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 19:38:20.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:20.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:20.634][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 19:38:20.635][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 19:38:20.636][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:20.637][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:20.638][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 19:38:20.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 19:38:20.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:20.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:20.643][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 19:38:20.644][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 19:38:20.646][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:20.647][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:20.648][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 19:38:20.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 19:38:20.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:20.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:20.654][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:20.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:20.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:20.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:20.658][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:20.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:20.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:20.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:20.662][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:20.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:20.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:20.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:20.667][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:20.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:20.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:20.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:20.672][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:20.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:20.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:20.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:20.678][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:20.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:20.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:20.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:20.683][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:20.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:20.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:20.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:20.689][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:20.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:20.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:20.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:20.693][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:20.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:20.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:20.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:20.698][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:20.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:20.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:20.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:20.711][self$createEntryFromContent] Accession numbers: 15440.
biodb.TRACE[2025-09-22 19:38:20.713][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2025-09-22 19:38:20.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2025-09-22 19:38:20.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:20.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:20.718][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2025-09-22 19:38:20.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2025-09-22 19:38:20.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:20.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:20.723][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2025-09-22 19:38:20.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2025-09-22 19:38:20.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:20.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-09-22 19:38:20.739][biodb::testThat]
biodb.INFO [2025-09-22 19:38:20.740][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2025-09-22 19:38:20.741][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-22 19:38:20.742][biodb::testThat]
biodb.TRACE[2025-09-22 19:38:20.746][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-22 19:38:20.747][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 19:38:20.748][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:20.750][ef$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:20.751][function(conn, opt)] Testing searchForEntries() with entry "15440" and field "name".
biodb.TRACE[2025-09-22 19:38:20.790][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-22 19:38:20.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 19:38:20.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:20.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:20.795][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-22 19:38:20.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 19:38:20.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:20.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:20.800][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-22 19:38:20.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 19:38:20.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:20.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:20.808][function(conn, opt)] With value "squalene".
sched.DEBUG[2025-09-22 19:38:20.814][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-09-22 19:38:20.839][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-22 19:38:20.845][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-09-22 19:38:20.847][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-09-22 19:38:20.873][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 [2025-09-22 19:38:20.925][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-22 19:38:20.930][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-09-22 19:38:20.932][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-22 19:38:20.934][function(conn, opt)] With found IDs [1]: "15440".
biodb.TRACE[2025-09-22 19:38:20.957][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:20.959][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:20.960][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:20.961][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:20.963][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:20.964][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:20.966][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:20.967][ef$get] fields variable is a list.
biodb.INFO [2025-09-22 19:38:20.974][biodb::testThat]
biodb.INFO [2025-09-22 19:38:20.975][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2025-09-22 19:38:20.976][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-22 19:38:20.978][biodb::testThat]
biodb.TRACE[2025-09-22 19:38:21.014][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-22 19:38:21.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 19:38:21.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:21.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:21.020][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-22 19:38:21.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 19:38:21.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:21.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:21.025][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-22 19:38:21.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 19:38:21.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:21.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-09-22 19:38:21.111][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 [2025-09-22 19:38:21.115][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-22 19:38:21.119][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-09-22 19:38:21.121][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.INFO [2025-09-22 19:38:21.146][biodb::testThat]
biodb.INFO [2025-09-22 19:38:21.148][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2025-09-22 19:38:21.149][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-22 19:38:21.151][biodb::testThat]
biodb.TRACE[2025-09-22 19:38:21.180][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 19:38:21.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 19:38:21.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:21.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:21.186][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 19:38:21.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 19:38:21.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:21.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:21.191][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 19:38:21.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 19:38:21.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:21.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:21.196][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 19:38:21.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 19:38:21.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:21.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:21.202][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:21.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:21.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:21.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:21.206][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:21.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:21.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:21.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:21.211][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-09-22 19:38:21.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-09-22 19:38:21.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:21.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:21.216][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-09-22 19:38:21.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-09-22 19:38:21.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:21.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:21.221][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-09-22 19:38:21.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-09-22 19:38:21.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:21.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:21.226][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-09-22 19:38:21.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-09-22 19:38:21.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:21.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:21.257][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 19:38:21.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 19:38:21.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:21.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:21.264][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 19:38:21.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 19:38:21.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:21.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:21.270][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 19:38:21.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 19:38:21.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:21.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:21.275][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 19:38:21.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 19:38:21.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:21.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:21.281][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:21.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:21.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:21.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:21.286][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:21.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:21.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:21.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:21.300][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-09-22 19:38:21.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-09-22 19:38:21.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:21.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:21.307][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-09-22 19:38:21.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-09-22 19:38:21.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:21.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:21.314][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-09-22 19:38:21.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-09-22 19:38:21.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:21.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:21.320][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-09-22 19:38:21.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-09-22 19:38:21.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:21.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-09-22 19:38:21.335][biodb::testThat]
biodb.INFO [2025-09-22 19:38:21.336][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2025-09-22 19:38:21.338][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-22 19:38:21.339][biodb::testThat]
biodb.INFO [2025-09-22 19:38:21.352][biodb::testThat]
biodb.INFO [2025-09-22 19:38:21.353][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2025-09-22 19:38:21.355][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-22 19:38:21.356][biodb::testThat]
biodb.INFO [2025-09-22 19:38:21.368][biodb::testThat]
biodb.INFO [2025-09-22 19:38:21.370][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2025-09-22 19:38:21.371][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-22 19:38:21.373][biodb::testThat]
biodb.DEBUG[2025-09-22 19:38:21.378][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
sched.TRACE[2025-09-22 19:38:22.140][try_get_rcurl_content] Using RCurl package for sending request (https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440).
biodb.INFO [2025-09-22 19:38:23.523][biodb::testThat]
biodb.INFO [2025-09-22 19:38:23.525][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2025-09-22 19:38:23.526][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-22 19:38:23.528][biodb::testThat]
biodb.TRACE[2025-09-22 19:38:23.537][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-22 19:38:23.538][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 19:38:23.540][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:23.541][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:23.543][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:23.544][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:23.546][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:23.547][ef$get] fields variable is a list.
biodb.INFO [2025-09-22 19:38:23.549][biodb::testThat]
biodb.INFO [2025-09-22 19:38:23.551][biodb::testThat] Running test function  test.searchCompound  (" We can search for a compound ").
biodb.INFO [2025-09-22 19:38:23.552][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-22 19:38:23.553][biodb::testThat]
biodb.TRACE[2025-09-22 19:38:23.571][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-22 19:38:23.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 19:38:23.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:23.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:23.577][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-22 19:38:23.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 19:38:23.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:23.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:23.582][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-22 19:38:23.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 19:38:23.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:23.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-09-22 19:38:23.732][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 [2025-09-22 19:38:23.736][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-22 19:38:23.740][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-09-22 19:38:23.741][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-09-22 19:38:23.865][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 [2025-09-22 19:38:23.871][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-22 19:38:23.875][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-09-22 19:38:23.876][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.TRACE[2025-09-22 19:38:23.897][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-09-22 19:38:23.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-09-22 19:38:23.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:23.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:23.911][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:23.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:23.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:23.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:23.917][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:23.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:23.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:23.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:23.923][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:23.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:23.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:23.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:23.929][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:23.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:23.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:23.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:23.934][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:23.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:23.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:23.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-09-22 19:38:23.948][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 [2025-09-22 19:38:23.952][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-22 19:38:23.956][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-09-22 19:38:23.958][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-22 19:38:23.962][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:23.963][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:23.965][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:23.973][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:23.974][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:23.975][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:23.977][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[2025-09-22 19:38:23.978][private$loadEntries] Creating entries from ids [1]: "192288".
biodb.DEBUG[2025-09-22 19:38:24.050][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-22 19:38:24.053][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-22 19:38:24.057][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/192288.xml.
biodb.DEBUG[2025-09-22 19:38:24.058][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-22 19:38:24.060][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-22 19:38:24.061][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-22 19:38:24.064][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:24.065][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:24.067][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:24.073][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:24.075][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:24.076][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:24.077][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:24.080][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:24.081][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:24.082][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.083][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.085][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:24.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:24.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.090][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 19:38:24.092][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 19:38:24.093][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.094][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.096][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 19:38:24.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 19:38:24.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.101][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 19:38:24.103][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 19:38:24.103][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.105][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.107][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 19:38:24.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 19:38:24.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.112][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 19:38:24.113][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 19:38:24.114][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.115][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.116][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 19:38:24.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 19:38:24.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.122][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 19:38:24.123][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 19:38:24.124][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.126][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.127][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 19:38:24.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 19:38:24.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.133][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-22 19:38:24.134][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-22 19:38:24.136][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.137][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.139][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 19:38:24.141][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:24.142][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.143][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.145][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 19:38:24.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:24.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.150][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:24.152][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:24.153][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.154][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.155][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:24.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:24.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.161][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-22 19:38:24.162][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 19:38:24.163][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.165][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.166][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-22 19:38:24.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 19:38:24.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.172][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 19:38:24.173][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 19:38:24.182][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.183][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.185][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 19:38:24.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 19:38:24.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.191][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 19:38:24.192][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 19:38:24.194][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.195][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.196][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 19:38:24.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 19:38:24.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.201][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:24.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:24.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.205][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:24.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:24.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.210][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:24.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:24.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.215][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:24.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:24.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.220][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:24.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:24.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.224][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:24.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:24.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.229][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:24.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:24.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.235][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:24.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:24.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.240][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:24.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:24.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.246][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:24.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:24.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:24.251][self$createEntryFromContent] Accession numbers: 192288.
biodb.TRACE[2025-09-22 19:38:24.265][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:24.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:24.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.271][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:24.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:24.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.275][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:24.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:24.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-09-22 19:38:24.281][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-22 19:38:24.284][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-22 19:38:24.287][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-09-22 19:38:24.289][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-22 19:38:24.310][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:24.311][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:24.313][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:24.320][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:24.321][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:24.323][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:24.324][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:24.325][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:24.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:24.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.330][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:24.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:24.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.336][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:24.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:24.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:24.350][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:24.351][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:24.352][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:24.360][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:24.362][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:24.363][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:24.364][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:24.366][private$loadEntries] Creating entries from ids [1]: "209892".
biodb.DEBUG[2025-09-22 19:38:24.367][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-22 19:38:24.369][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-22 19:38:24.373][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/209892.xml.
biodb.DEBUG[2025-09-22 19:38:24.375][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-22 19:38:24.377][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-22 19:38:24.378][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-22 19:38:24.381][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:24.382][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:24.383][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:24.390][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:24.392][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:24.393][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:24.394][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:24.398][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:24.399][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:24.400][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.402][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.404][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:24.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:24.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.409][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 19:38:24.410][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 19:38:24.411][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.413][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.414][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 19:38:24.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 19:38:24.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.420][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 19:38:24.421][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 19:38:24.422][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.424][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.426][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 19:38:24.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 19:38:24.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.431][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 19:38:24.432][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 19:38:24.433][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.434][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.436][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 19:38:24.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 19:38:24.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.441][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 19:38:24.443][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 19:38:24.444][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.445][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.447][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 19:38:24.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 19:38:24.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.452][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-22 19:38:24.453][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-22 19:38:24.454][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.455][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.457][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 19:38:24.458][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:24.459][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.461][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.462][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 19:38:24.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:24.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.467][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:24.468][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:24.470][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.471][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.473][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:24.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:24.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.478][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-22 19:38:24.480][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 19:38:24.481][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.482][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.484][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-22 19:38:24.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 19:38:24.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.490][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 19:38:24.492][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 19:38:24.493][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.495][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.496][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 19:38:24.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 19:38:24.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.502][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 19:38:24.503][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 19:38:24.504][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.505][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.507][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 19:38:24.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 19:38:24.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.512][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:24.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:24.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.517][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:24.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:24.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.530][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:24.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:24.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.535][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:24.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:24.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.540][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:24.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:24.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.546][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:24.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:24.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.552][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:24.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:24.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.557][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:24.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:24.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.563][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:24.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:24.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.568][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:24.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:24.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:24.574][self$createEntryFromContent] Accession numbers: 209892.
biodb.TRACE[2025-09-22 19:38:24.575][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:24.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:24.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.581][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:24.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:24.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.586][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:24.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:24.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-09-22 19:38:24.620][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 [2025-09-22 19:38:24.624][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-22 19:38:24.629][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-09-22 19:38:24.631][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-22 19:38:24.635][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:24.636][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:24.638][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:24.646][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:24.647][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:24.648][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:24.649][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.TRACE[2025-09-22 19:38:24.650][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:24.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:24.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.656][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:24.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:24.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.661][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:24.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:24.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:24.666][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:24.667][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:24.668][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:24.676][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:24.677][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:24.679][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:24.680][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:24.681][private$loadEntries] Creating entries from ids [1]: "26747".
biodb.DEBUG[2025-09-22 19:38:24.683][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-22 19:38:24.685][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-22 19:38:24.689][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26747.xml.
biodb.DEBUG[2025-09-22 19:38:24.690][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-22 19:38:24.692][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-22 19:38:24.693][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-22 19:38:24.696][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:24.697][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:24.698][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:24.706][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:24.707][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:24.708][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:24.709][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:24.712][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:24.721][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:24.723][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.724][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.726][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:24.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:24.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.730][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 19:38:24.732][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 19:38:24.732][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.734][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.735][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 19:38:24.736][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 19:38:24.737][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.738][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.740][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 19:38:24.742][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 19:38:24.743][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.744][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.746][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 19:38:24.747][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 19:38:24.748][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.749][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.751][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-22 19:38:24.753][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-22 19:38:24.754][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.755][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.757][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 19:38:24.758][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:24.759][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.761][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.762][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:24.764][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:24.765][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.766][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.768][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-22 19:38:24.769][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 19:38:24.770][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.772][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.773][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-22 19:38:24.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 19:38:24.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.779][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 19:38:24.780][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 19:38:24.781][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.782][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.784][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 19:38:24.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 19:38:24.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.789][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 19:38:24.790][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 19:38:24.792][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.793][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.795][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:24.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:24.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.800][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:24.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:24.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.806][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:24.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:24.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.811][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:24.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:24.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.816][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:24.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:24.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.821][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:24.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:24.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.827][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:24.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:24.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.832][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:24.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:24.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.838][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:24.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:24.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.843][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:24.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:24.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:24.848][self$createEntryFromContent] Accession numbers: 26747.
biodb.TRACE[2025-09-22 19:38:24.850][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:24.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:24.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.855][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:24.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:24.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.861][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:24.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:24.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.866][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:24.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:24.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.871][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:24.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:24.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:24.877][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:24.878][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:24.879][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:24.893][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:24.894][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:24.895][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:24.896][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:24.898][private$loadEntries] Creating entries from ids [1]: "59285".
biodb.DEBUG[2025-09-22 19:38:24.899][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-22 19:38:24.901][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-22 19:38:24.905][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/59285.xml.
biodb.DEBUG[2025-09-22 19:38:24.906][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-22 19:38:24.908][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-22 19:38:24.909][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-22 19:38:24.912][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:24.913][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:24.914][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:24.922][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:24.923][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:24.925][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:24.926][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:24.929][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:24.931][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:24.933][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.934][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.936][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:24.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:24.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.941][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 19:38:24.943][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 19:38:24.944][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.945][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.947][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 19:38:24.948][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 19:38:24.949][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.950][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.952][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 19:38:24.953][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 19:38:24.955][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.956][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.958][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 19:38:24.959][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 19:38:24.961][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.962][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.964][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-22 19:38:24.965][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-22 19:38:24.966][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.967][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.969][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 19:38:24.970][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:24.972][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.973][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.974][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:24.976][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:24.977][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.978][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.979][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-22 19:38:24.981][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 19:38:24.982][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.983][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.986][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-22 19:38:24.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 19:38:24.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.991][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 19:38:24.992][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 19:38:24.993][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:24.994][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:24.996][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 19:38:24.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 19:38:24.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.001][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 19:38:25.002][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 19:38:25.003][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.004][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.006][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:25.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:25.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.011][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:25.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:25.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.016][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:25.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:25.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.021][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:25.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:25.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.026][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:25.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:25.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.032][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:25.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:25.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.037][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:25.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:25.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.042][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:25.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:25.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.048][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:25.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:25.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.053][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:25.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:25.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:25.065][self$createEntryFromContent] Accession numbers: 59285.
biodb.TRACE[2025-09-22 19:38:25.066][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:25.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:25.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.072][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:25.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:25.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.076][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:25.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:25.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.081][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:25.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:25.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.085][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:25.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:25.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:25.089][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:25.091][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:25.092][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:25.099][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:25.100][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:25.101][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:25.102][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:25.104][private$loadEntries] Creating entries from ids [1]: "75174".
biodb.DEBUG[2025-09-22 19:38:25.105][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-22 19:38:25.107][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-22 19:38:25.110][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75174.xml.
biodb.DEBUG[2025-09-22 19:38:25.112][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-22 19:38:25.113][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-22 19:38:25.115][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-22 19:38:25.117][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:25.118][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:25.119][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:25.127][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:25.129][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:25.130][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:25.131][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:25.135][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:25.136][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:25.137][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.138][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.140][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:25.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:25.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.146][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 19:38:25.147][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 19:38:25.148][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.149][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.151][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 19:38:25.153][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 19:38:25.154][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.155][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.157][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 19:38:25.158][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 19:38:25.159][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.160][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.162][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 19:38:25.163][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 19:38:25.165][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.166][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.167][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-22 19:38:25.169][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-22 19:38:25.170][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.171][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.173][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 19:38:25.174][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:25.175][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.177][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.178][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:25.180][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:25.181][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.182][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.183][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-22 19:38:25.185][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 19:38:25.186][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.187][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.190][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-22 19:38:25.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 19:38:25.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.195][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 19:38:25.197][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 19:38:25.198][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.200][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.201][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 19:38:25.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 19:38:25.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.207][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 19:38:25.209][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 19:38:25.210][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.211][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.212][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:25.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:25.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.218][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:25.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:25.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.223][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:25.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:25.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.228][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:25.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:25.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.241][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:25.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:25.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.246][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:25.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:25.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.251][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:25.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:25.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.256][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:25.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:25.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.261][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:25.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:25.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.267][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:25.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:25.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:25.272][self$createEntryFromContent] Accession numbers: 75174.
biodb.TRACE[2025-09-22 19:38:25.273][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:25.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:25.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.279][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:25.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:25.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.284][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:25.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:25.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.289][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:25.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:25.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.294][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:25.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:25.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:25.300][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:25.301][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:25.302][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:25.309][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:25.310][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:25.311][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:25.312][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:25.313][private$loadEntries] Creating entries from ids [1]: "15441".
biodb.DEBUG[2025-09-22 19:38:25.315][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-22 19:38:25.317][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-22 19:38:25.322][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15441.xml.
biodb.DEBUG[2025-09-22 19:38:25.324][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-22 19:38:25.326][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-22 19:38:25.327][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-22 19:38:25.330][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:25.331][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:25.332][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:25.340][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:25.342][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:25.343][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:25.344][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:25.347][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:25.349][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:25.350][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.352][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.353][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:25.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:25.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.359][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 19:38:25.361][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 19:38:25.362][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.363][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.365][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 19:38:25.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 19:38:25.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.371][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 19:38:25.372][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 19:38:25.374][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.375][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.377][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 19:38:25.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 19:38:25.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.383][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 19:38:25.385][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 19:38:25.387][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.388][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.390][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 19:38:25.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 19:38:25.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.395][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 19:38:25.396][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 19:38:25.398][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.399][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.401][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 19:38:25.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 19:38:25.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.406][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-22 19:38:25.407][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-22 19:38:25.409][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.417][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.419][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-22 19:38:25.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-22 19:38:25.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.425][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 19:38:25.426][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:25.427][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.428][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.430][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 19:38:25.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:25.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.435][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:25.436][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:25.437][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.438][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.439][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:25.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:25.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.444][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-22 19:38:25.445][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 19:38:25.446][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.447][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.450][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-22 19:38:25.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 19:38:25.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.455][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 19:38:25.457][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 19:38:25.458][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.459][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.461][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 19:38:25.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 19:38:25.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.466][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 19:38:25.467][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 19:38:25.469][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.470][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.471][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 19:38:25.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 19:38:25.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.477][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:25.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:25.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.482][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:25.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:25.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.487][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:25.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:25.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.491][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:25.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:25.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.495][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:25.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:25.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.500][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:25.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:25.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.505][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:25.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:25.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.511][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:25.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:25.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.515][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:25.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:25.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.521][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:25.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:25.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:25.526][self$createEntryFromContent] Accession numbers: 15441.
biodb.TRACE[2025-09-22 19:38:25.527][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:25.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:25.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.533][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:25.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:25.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.538][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:25.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:25.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:25.543][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:25.545][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:25.546][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:25.554][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:25.555][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:25.557][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:25.558][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:25.560][private$loadEntries] Creating entries from ids [1]: "15442".
biodb.DEBUG[2025-09-22 19:38:25.561][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-22 19:38:25.563][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-22 19:38:25.568][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15442.xml.
biodb.DEBUG[2025-09-22 19:38:25.569][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-22 19:38:25.571][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-22 19:38:25.572][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-22 19:38:25.574][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:25.575][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:25.576][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:25.591][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:25.593][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:25.594][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:25.595][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:25.597][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:25.599][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:25.600][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.601][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.603][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:25.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:25.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.609][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 19:38:25.610][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 19:38:25.611][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.613][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.614][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 19:38:25.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 19:38:25.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.619][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 19:38:25.620][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 19:38:25.622][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.623][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.625][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 19:38:25.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 19:38:25.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.631][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 19:38:25.632][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 19:38:25.634][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.635][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.636][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 19:38:25.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 19:38:25.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.642][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 19:38:25.643][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 19:38:25.644][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.645][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.647][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 19:38:25.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 19:38:25.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.652][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-22 19:38:25.653][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-22 19:38:25.654][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.655][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.657][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-22 19:38:25.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-22 19:38:25.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.663][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 19:38:25.664][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:25.665][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.666][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.668][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 19:38:25.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:25.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.673][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:25.675][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:25.676][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.677][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.679][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:25.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:25.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.684][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-22 19:38:25.685][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 19:38:25.686][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.687][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.689][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-22 19:38:25.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 19:38:25.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.694][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 19:38:25.695][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 19:38:25.696][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.697][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.699][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 19:38:25.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 19:38:25.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.704][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 19:38:25.706][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 19:38:25.707][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.708][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.710][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 19:38:25.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 19:38:25.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.716][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:25.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:25.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.720][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:25.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:25.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.726][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:25.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:25.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.731][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:25.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:25.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.736][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:25.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:25.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.740][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:25.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:25.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.752][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:25.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:25.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.759][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:25.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:25.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.765][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:25.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:25.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.771][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:25.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:25.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:25.777][self$createEntryFromContent] Accession numbers: 15442.
biodb.TRACE[2025-09-22 19:38:25.778][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:25.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:25.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.783][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:25.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:25.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.789][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:25.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:25.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:25.794][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:25.795][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:25.796][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:25.803][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:25.805][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:25.806][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:25.807][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:25.809][private$loadEntries] Creating entries from ids [1]: "57310".
biodb.DEBUG[2025-09-22 19:38:25.810][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-22 19:38:25.812][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-22 19:38:25.816][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/57310.xml.
biodb.DEBUG[2025-09-22 19:38:25.818][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-22 19:38:25.820][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-22 19:38:25.822][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-22 19:38:25.824][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:25.825][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:25.826][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:25.834][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:25.835][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:25.837][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:25.838][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:25.841][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:25.842][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:25.843][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.844][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.846][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:25.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:25.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.851][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 19:38:25.853][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 19:38:25.853][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.854][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.856][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 19:38:25.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 19:38:25.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.861][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 19:38:25.863][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 19:38:25.864][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.865][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.867][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 19:38:25.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 19:38:25.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.872][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 19:38:25.873][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 19:38:25.874][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.876][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.877][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 19:38:25.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 19:38:25.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.883][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 19:38:25.884][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 19:38:25.885][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.887][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.888][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 19:38:25.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 19:38:25.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.894][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-22 19:38:25.895][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-22 19:38:25.896][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.897][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.899][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 19:38:25.900][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:25.902][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.903][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.905][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 19:38:25.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:25.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.910][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:25.912][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:25.913][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.914][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.915][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:25.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:25.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.921][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-22 19:38:25.923][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 19:38:25.932][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.933][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.936][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-22 19:38:25.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 19:38:25.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.942][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 19:38:25.944][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 19:38:25.945][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.946][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.948][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 19:38:25.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 19:38:25.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.953][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 19:38:25.955][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 19:38:25.956][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.957][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.959][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 19:38:25.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 19:38:25.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.964][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:25.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:25.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.970][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:25.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:25.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.976][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:25.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:25.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.981][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:25.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:25.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.986][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:25.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:25.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.991][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:25.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:25.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:25.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:25.996][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:25.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:25.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.002][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:26.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:26.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.008][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:26.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:26.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.013][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:26.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:26.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:26.019][self$createEntryFromContent] Accession numbers: 57310.
biodb.TRACE[2025-09-22 19:38:26.020][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:26.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:26.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.025][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:26.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:26.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.031][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:26.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:26.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:26.036][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:26.037][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:26.038][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:26.045][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:26.047][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:26.048][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:26.050][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[2025-09-22 19:38:26.051][private$loadEntries] Creating entries from ids [1]: "66216".
biodb.DEBUG[2025-09-22 19:38:26.053][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-22 19:38:26.055][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-22 19:38:26.060][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66216.xml.
biodb.DEBUG[2025-09-22 19:38:26.061][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-22 19:38:26.063][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-22 19:38:26.064][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-22 19:38:26.067][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:26.068][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:26.069][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:26.076][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:26.078][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:26.079][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:26.080][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:26.084][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:26.085][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:26.087][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.088][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.090][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:26.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:26.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.096][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 19:38:26.097][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 19:38:26.098][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.100][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.101][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 19:38:26.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 19:38:26.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.130][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 19:38:26.132][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 19:38:26.133][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.135][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.137][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 19:38:26.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 19:38:26.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.143][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 19:38:26.144][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 19:38:26.146][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.147][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.149][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 19:38:26.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 19:38:26.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.154][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 19:38:26.156][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 19:38:26.157][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.158][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.160][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 19:38:26.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 19:38:26.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.165][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-22 19:38:26.167][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-22 19:38:26.168][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.169][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.171][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 19:38:26.172][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:26.174][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.175][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.177][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 19:38:26.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:26.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.182][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:26.184][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:26.185][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.186][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.188][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:26.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:26.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.193][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-22 19:38:26.195][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 19:38:26.195][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.197][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.198][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-22 19:38:26.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 19:38:26.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.204][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 19:38:26.205][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 19:38:26.206][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.208][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.209][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 19:38:26.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 19:38:26.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.215][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 19:38:26.217][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 19:38:26.218][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.219][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.221][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 19:38:26.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 19:38:26.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.227][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:26.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:26.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.232][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:26.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:26.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.237][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:26.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:26.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.242][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:26.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:26.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.266][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:26.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:26.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.273][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:26.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:26.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.283][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:26.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:26.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.289][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:26.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:26.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.294][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:26.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:26.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.300][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:26.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:26.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:26.304][self$createEntryFromContent] Accession numbers: 66216.
biodb.TRACE[2025-09-22 19:38:26.306][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:26.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:26.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.311][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:26.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:26.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.317][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:26.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:26.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:26.322][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:26.330][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:26.331][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:26.340][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:26.341][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:26.342][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:26.343][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:26.345][private$loadEntries] Creating entries from ids [1]: "70860".
biodb.DEBUG[2025-09-22 19:38:26.346][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-22 19:38:26.348][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-22 19:38:26.352][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70860.xml.
biodb.DEBUG[2025-09-22 19:38:26.353][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-22 19:38:26.355][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-22 19:38:26.356][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-22 19:38:26.359][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:26.360][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:26.361][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:26.368][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:26.370][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:26.371][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:26.373][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:26.376][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:26.377][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:26.379][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.380][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.382][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:26.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:26.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.387][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 19:38:26.389][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 19:38:26.390][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.392][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.393][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 19:38:26.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 19:38:26.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.399][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 19:38:26.401][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 19:38:26.402][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.403][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.405][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 19:38:26.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 19:38:26.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.410][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 19:38:26.412][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 19:38:26.413][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.414][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.416][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 19:38:26.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 19:38:26.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.421][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 19:38:26.422][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 19:38:26.424][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.425][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.427][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 19:38:26.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 19:38:26.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.432][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-22 19:38:26.433][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-22 19:38:26.434][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.435][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.437][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 19:38:26.438][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:26.439][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.441][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.442][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 19:38:26.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:26.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.448][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:26.449][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:26.451][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.452][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.453][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:26.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:26.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.459][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-22 19:38:26.461][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 19:38:26.462][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.463][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.465][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-22 19:38:26.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 19:38:26.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.470][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 19:38:26.471][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 19:38:26.472][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.474][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.475][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 19:38:26.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 19:38:26.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.481][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 19:38:26.482][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 19:38:26.483][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.484][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.485][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 19:38:26.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 19:38:26.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.490][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:26.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:26.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.495][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:26.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:26.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.500][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:26.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:26.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.514][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:26.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:26.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.519][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:26.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:26.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.524][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:26.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:26.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.530][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:26.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:26.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.535][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:26.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:26.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.541][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:26.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:26.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.546][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:26.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:26.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:26.551][self$createEntryFromContent] Accession numbers: 70860.
biodb.TRACE[2025-09-22 19:38:26.553][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:26.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:26.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.558][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:26.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:26.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.564][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:26.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:26.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:26.569][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:26.571][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:26.572][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:26.579][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:26.580][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:26.582][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:26.583][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:26.584][private$loadEntries] Creating entries from ids [1]: "70861".
biodb.DEBUG[2025-09-22 19:38:26.586][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-22 19:38:26.588][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-22 19:38:26.592][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70861.xml.
biodb.DEBUG[2025-09-22 19:38:26.594][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-22 19:38:26.596][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-22 19:38:26.597][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-22 19:38:26.599][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:26.601][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:26.602][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:26.609][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:26.610][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:26.611][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:26.612][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.TRACE[2025-09-22 19:38:26.615][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:26.616][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:26.617][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.618][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.620][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:26.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:26.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.625][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 19:38:26.626][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 19:38:26.627][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.629][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.631][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 19:38:26.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 19:38:26.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.635][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 19:38:26.636][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 19:38:26.637][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.638][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.639][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 19:38:26.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 19:38:26.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.645][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 19:38:26.646][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 19:38:26.647][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.649][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.650][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 19:38:26.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 19:38:26.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.655][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 19:38:26.656][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 19:38:26.658][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.658][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.660][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 19:38:26.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 19:38:26.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.665][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-22 19:38:26.666][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-22 19:38:26.667][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.668][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.670][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 19:38:26.671][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:26.672][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.673][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.675][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 19:38:26.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:26.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.689][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:26.691][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:26.692][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.694][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.695][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:26.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:26.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.702][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-22 19:38:26.703][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 19:38:26.704][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.706][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.708][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-22 19:38:26.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 19:38:26.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.713][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 19:38:26.714][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 19:38:26.716][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.716][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.718][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 19:38:26.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 19:38:26.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.723][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 19:38:26.724][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 19:38:26.725][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.726][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.727][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 19:38:26.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 19:38:26.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.733][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:26.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:26.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.738][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:26.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:26.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.743][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:26.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:26.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.748][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:26.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:26.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.754][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:26.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:26.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.760][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:26.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:26.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.764][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:26.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:26.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.771][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:26.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:26.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.776][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:26.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:26.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.781][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:26.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:26.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:26.786][self$createEntryFromContent] Accession numbers: 70861.
biodb.TRACE[2025-09-22 19:38:26.787][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:26.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:26.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.792][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:26.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:26.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.798][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:26.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:26.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:26.803][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:26.804][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:26.806][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:26.813][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:26.815][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:26.816][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:26.817][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:26.819][private$loadEntries] Creating entries from ids [1]: "78662".
biodb.DEBUG[2025-09-22 19:38:26.820][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-22 19:38:26.822][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-22 19:38:26.826][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/78662.xml.
biodb.DEBUG[2025-09-22 19:38:26.827][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-22 19:38:26.829][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-22 19:38:26.831][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-22 19:38:26.833][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:26.834][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:26.835][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:26.842][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:26.843][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:26.844][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:26.846][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:26.849][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:26.851][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:26.852][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.853][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.855][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:26.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:26.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.868][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 19:38:26.870][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 19:38:26.872][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.873][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.875][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 19:38:26.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 19:38:26.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.880][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 19:38:26.882][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 19:38:26.883][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.884][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.886][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 19:38:26.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 19:38:26.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.893][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 19:38:26.895][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 19:38:26.896][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.898][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.899][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 19:38:26.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 19:38:26.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.904][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 19:38:26.906][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 19:38:26.907][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.908][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.909][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 19:38:26.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 19:38:26.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.915][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-22 19:38:26.915][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-22 19:38:26.917][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.918][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.919][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 19:38:26.921][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:26.922][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.923][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.925][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 19:38:26.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:26.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.930][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:26.932][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:26.933][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.934][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.935][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:26.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:26.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.941][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-22 19:38:26.942][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 19:38:26.943][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.945][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.947][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-22 19:38:26.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 19:38:26.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.952][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 19:38:26.954][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 19:38:26.955][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.956][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.958][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 19:38:26.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 19:38:26.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.963][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 19:38:26.965][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 19:38:26.966][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.967][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.969][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 19:38:26.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 19:38:26.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.975][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:26.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:26.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.980][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:26.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:26.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.985][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:26.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:26.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.990][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:26.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:26.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:26.995][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:26.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:26.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:26.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.000][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:27.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:27.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.004][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:27.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:27.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.010][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:27.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:27.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.015][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:27.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:27.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.020][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:27.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:27.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:27.026][self$createEntryFromContent] Accession numbers: 78662.
biodb.TRACE[2025-09-22 19:38:27.027][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:27.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:27.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.040][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:27.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:27.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.046][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:27.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:27.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:27.052][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:27.053][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:27.054][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:27.061][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:27.063][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:27.064][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:27.065][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:27.067][private$loadEntries] Creating entries from ids [1]: "85084".
biodb.DEBUG[2025-09-22 19:38:27.068][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-22 19:38:27.070][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-22 19:38:27.086][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85084.xml.
biodb.DEBUG[2025-09-22 19:38:27.088][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-22 19:38:27.090][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-22 19:38:27.092][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-22 19:38:27.094][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:27.095][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:27.096][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:27.103][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:27.105][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:27.106][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:27.107][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:27.110][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:27.112][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:27.113][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.114][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.116][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:27.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:27.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.122][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 19:38:27.123][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 19:38:27.124][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.125][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.126][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 19:38:27.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 19:38:27.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.131][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 19:38:27.132][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 19:38:27.133][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.134][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.136][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 19:38:27.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 19:38:27.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.141][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 19:38:27.142][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 19:38:27.143][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.145][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.146][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 19:38:27.148][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 19:38:27.149][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.150][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.152][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-22 19:38:27.153][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-22 19:38:27.154][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.155][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.157][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 19:38:27.159][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:27.160][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.161][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.163][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 19:38:27.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:27.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.169][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:27.170][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:27.171][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.173][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.174][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:27.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:27.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.180][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-22 19:38:27.182][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 19:38:27.183][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.184][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.186][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-22 19:38:27.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 19:38:27.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.192][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 19:38:27.194][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 19:38:27.195][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.196][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.198][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 19:38:27.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 19:38:27.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.202][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 19:38:27.203][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 19:38:27.205][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.206][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.208][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:27.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:27.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.214][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:27.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:27.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.219][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:27.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:27.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.231][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:27.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:27.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.237][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:27.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:27.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.243][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:27.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:27.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.248][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:27.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:27.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.254][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:27.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:27.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.260][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:27.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:27.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.264][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:27.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:27.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:27.269][self$createEntryFromContent] Accession numbers: 85084.
biodb.TRACE[2025-09-22 19:38:27.271][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:27.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:27.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.276][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:27.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:27.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.281][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:27.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:27.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:27.286][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:27.287][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:27.288][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:27.295][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:27.296][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:27.297][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:27.299][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:27.300][private$loadEntries] Creating entries from ids [1]: "85086".
biodb.DEBUG[2025-09-22 19:38:27.301][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-22 19:38:27.303][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-22 19:38:27.307][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85086.xml.
biodb.DEBUG[2025-09-22 19:38:27.308][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-22 19:38:27.310][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-22 19:38:27.311][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-22 19:38:27.313][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:27.314][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:27.316][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:27.324][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:27.325][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:27.327][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:27.328][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:27.331][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:27.332][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:27.334][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.335][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.337][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:27.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:27.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.343][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 19:38:27.344][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 19:38:27.345][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.347][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.348][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 19:38:27.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 19:38:27.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.354][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 19:38:27.355][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 19:38:27.356][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.358][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.360][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 19:38:27.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 19:38:27.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.365][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 19:38:27.366][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 19:38:27.368][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.369][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.370][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 19:38:27.372][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 19:38:27.373][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.374][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.376][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-22 19:38:27.378][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-22 19:38:27.379][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.380][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.382][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 19:38:27.384][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:27.385][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.386][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.388][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 19:38:27.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:27.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.393][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:27.395][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:27.396][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.397][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.399][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:27.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:27.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.413][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-22 19:38:27.416][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 19:38:27.417][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.419][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.422][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-22 19:38:27.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 19:38:27.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.428][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 19:38:27.429][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 19:38:27.431][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.432][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.434][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 19:38:27.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 19:38:27.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.439][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 19:38:27.440][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 19:38:27.442][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.443][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.445][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:27.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:27.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.450][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:27.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:27.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.456][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:27.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:27.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.461][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:27.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:27.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.466][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:27.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:27.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.472][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:27.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:27.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.476][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:27.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:27.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.482][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:27.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:27.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.487][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:27.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:27.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.492][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:27.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:27.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:27.497][self$createEntryFromContent] Accession numbers: 85086.
biodb.TRACE[2025-09-22 19:38:27.499][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:27.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:27.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.504][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:27.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:27.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.509][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:27.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:27.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:27.514][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:27.516][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:27.517][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:27.524][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:27.525][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:27.526][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:27.528][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:27.529][private$loadEntries] Creating entries from ids [1]: "88123".
biodb.DEBUG[2025-09-22 19:38:27.531][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-22 19:38:27.533][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-22 19:38:27.537][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/88123.xml.
biodb.DEBUG[2025-09-22 19:38:27.538][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-22 19:38:27.540][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-22 19:38:27.541][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-22 19:38:27.543][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:27.544][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:27.545][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:27.553][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:27.554][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:27.556][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:27.557][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:27.560][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:27.561][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:27.563][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.564][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.565][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:27.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:27.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.570][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 19:38:27.571][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 19:38:27.572][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.573][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.575][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 19:38:27.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 19:38:27.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.580][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 19:38:27.581][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 19:38:27.589][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.591][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.593][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 19:38:27.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 19:38:27.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.600][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 19:38:27.601][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 19:38:27.603][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.604][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.606][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 19:38:27.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 19:38:27.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.611][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 19:38:27.612][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 19:38:27.613][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.614][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.615][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 19:38:27.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 19:38:27.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.621][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-22 19:38:27.623][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-22 19:38:27.624][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.625][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.627][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 19:38:27.628][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:27.630][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.631][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.633][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 19:38:27.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:27.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.638][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:27.640][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:27.641][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.642][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.644][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:27.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:27.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.650][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-22 19:38:27.651][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 19:38:27.652][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.654][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.655][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-22 19:38:27.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 19:38:27.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.661][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 19:38:27.662][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 19:38:27.663][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.664][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.666][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 19:38:27.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 19:38:27.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.671][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 19:38:27.673][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 19:38:27.674][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.675][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.677][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 19:38:27.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 19:38:27.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.682][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:27.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:27.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.687][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:27.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:27.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.693][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:27.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:27.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.698][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:27.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:27.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.704][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:27.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:27.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.708][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:27.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:27.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.713][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:27.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:27.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.718][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:27.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:27.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.724][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:27.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:27.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.729][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:27.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:27.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:27.735][self$createEntryFromContent] Accession numbers: 88123.
biodb.TRACE[2025-09-22 19:38:27.736][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:27.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:27.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.742][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:27.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:27.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.748][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:27.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:27.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:27.753][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:27.754][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:27.755][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:27.770][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:27.771][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:27.773][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:27.774][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:27.775][private$loadEntries] Creating entries from ids [1]: "134117".
biodb.DEBUG[2025-09-22 19:38:27.776][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-22 19:38:27.778][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-22 19:38:27.782][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/134117.xml.
biodb.DEBUG[2025-09-22 19:38:27.783][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-22 19:38:27.785][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-22 19:38:27.786][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-22 19:38:27.788][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:27.789][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:27.791][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:27.799][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:27.800][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:27.801][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:27.802][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:27.805][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:27.806][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:27.807][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.808][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.810][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:27.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:27.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.815][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 19:38:27.817][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 19:38:27.818][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.819][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.821][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 19:38:27.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 19:38:27.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.827][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 19:38:27.828][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 19:38:27.829][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.831][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.832][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 19:38:27.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 19:38:27.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.837][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 19:38:27.839][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 19:38:27.840][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.841][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.843][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 19:38:27.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 19:38:27.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.848][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 19:38:27.850][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 19:38:27.851][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.852][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.854][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 19:38:27.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 19:38:27.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.860][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-22 19:38:27.862][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-22 19:38:27.863][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.864][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.866][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 19:38:27.867][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:27.868][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.870][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.871][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 19:38:27.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:27.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.877][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:27.878][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:27.879][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.880][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.882][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:27.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:27.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.887][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-22 19:38:27.889][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 19:38:27.890][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.891][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.893][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-22 19:38:27.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 19:38:27.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.899][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 19:38:27.901][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 19:38:27.902][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.903][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.905][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 19:38:27.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 19:38:27.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.910][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 19:38:27.911][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 19:38:27.913][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.913][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.915][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 19:38:27.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 19:38:27.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.939][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:27.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:27.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.945][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:27.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:27.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.952][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:27.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:27.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.967][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:27.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:27.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.973][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:27.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:27.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.979][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:27.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:27.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.983][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:27.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:27.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.989][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:27.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:27.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.994][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:27.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:27.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:27.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:27.999][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:28.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:28.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:28.004][self$createEntryFromContent] Accession numbers: 134117.
biodb.TRACE[2025-09-22 19:38:28.005][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:28.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:28.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.009][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:28.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:28.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.014][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:28.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:28.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:28.019][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:28.020][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:28.021][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:28.027][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:28.029][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:28.030][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:28.032][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[2025-09-22 19:38:28.033][private$loadEntries] Creating entries from ids [1]: "138307".
biodb.DEBUG[2025-09-22 19:38:28.035][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-22 19:38:28.037][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-22 19:38:28.041][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/138307.xml.
biodb.DEBUG[2025-09-22 19:38:28.042][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-22 19:38:28.044][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-22 19:38:28.046][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-22 19:38:28.048][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:28.049][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:28.050][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:28.058][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:28.059][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:28.061][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:28.062][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:28.065][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:28.067][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:28.069][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.070][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.072][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:28.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:28.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.078][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 19:38:28.079][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 19:38:28.080][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.082][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.083][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 19:38:28.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 19:38:28.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.088][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 19:38:28.090][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 19:38:28.091][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.092][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.094][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 19:38:28.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 19:38:28.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.099][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 19:38:28.100][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 19:38:28.101][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.102][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.103][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 19:38:28.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 19:38:28.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.108][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 19:38:28.109][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 19:38:28.111][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.112][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.114][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 19:38:28.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 19:38:28.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.119][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-22 19:38:28.121][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-22 19:38:28.122][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.123][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.125][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 19:38:28.126][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:28.127][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.129][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.131][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 19:38:28.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:28.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.145][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:28.147][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:28.148][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.149][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.151][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:28.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:28.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.157][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-22 19:38:28.158][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 19:38:28.159][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.161][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.162][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-22 19:38:28.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 19:38:28.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.168][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 19:38:28.169][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 19:38:28.171][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.172][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.174][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 19:38:28.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 19:38:28.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.179][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 19:38:28.180][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 19:38:28.181][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.183][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.184][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 19:38:28.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 19:38:28.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.189][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:28.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:28.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.194][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:28.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:28.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.200][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:28.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:28.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.205][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:28.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:28.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.210][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:28.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:28.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.215][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:28.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:28.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.220][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:28.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:28.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.226][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:28.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:28.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.230][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:28.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:28.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.235][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:28.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:28.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:28.240][self$createEntryFromContent] Accession numbers: 138307.
biodb.TRACE[2025-09-22 19:38:28.241][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:28.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:28.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.245][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:28.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:28.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.250][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:28.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:28.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:28.255][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:28.256][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:28.257][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:28.264][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:28.265][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:28.267][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:28.268][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:28.270][private$loadEntries] Creating entries from ids [1]: "176803".
biodb.DEBUG[2025-09-22 19:38:28.271][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-22 19:38:28.273][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-22 19:38:28.277][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176803.xml.
biodb.DEBUG[2025-09-22 19:38:28.278][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-22 19:38:28.280][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-22 19:38:28.282][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-22 19:38:28.284][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:28.285][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:28.286][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:28.293][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:28.294][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:28.295][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:28.296][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:28.300][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:28.301][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:28.303][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.311][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.314][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:28.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:28.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.320][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 19:38:28.321][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 19:38:28.322][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.324][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.325][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 19:38:28.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 19:38:28.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.329][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 19:38:28.330][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 19:38:28.331][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.333][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.334][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 19:38:28.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 19:38:28.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.340][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 19:38:28.341][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 19:38:28.342][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.343][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.344][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 19:38:28.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 19:38:28.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.350][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 19:38:28.351][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 19:38:28.352][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.353][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.355][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 19:38:28.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 19:38:28.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.360][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-22 19:38:28.362][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-22 19:38:28.363][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.364][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.366][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 19:38:28.368][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:28.369][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.370][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.371][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 19:38:28.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:28.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.377][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:28.379][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:28.380][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.381][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.383][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:28.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:28.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.389][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-22 19:38:28.390][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 19:38:28.391][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.392][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.394][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-22 19:38:28.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 19:38:28.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.399][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 19:38:28.400][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 19:38:28.402][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.403][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.405][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 19:38:28.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 19:38:28.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.410][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 19:38:28.411][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 19:38:28.411][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.412][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.414][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 19:38:28.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 19:38:28.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.420][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:28.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:28.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.425][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:28.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:28.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.429][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:28.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:28.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.433][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:28.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:28.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.438][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:28.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:28.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.443][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:28.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:28.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.447][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:28.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:28.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.452][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:28.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:28.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.458][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:28.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:28.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.463][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:28.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:28.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:28.476][self$createEntryFromContent] Accession numbers: 176803.
biodb.TRACE[2025-09-22 19:38:28.478][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:28.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:28.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.484][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:28.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:28.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.489][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:28.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:28.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:28.494][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:28.495][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:28.497][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:28.504][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:28.506][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:28.507][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:28.508][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:28.510][private$loadEntries] Creating entries from ids [1]: "176962".
biodb.DEBUG[2025-09-22 19:38:28.511][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-22 19:38:28.513][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-22 19:38:28.518][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176962.xml.
biodb.DEBUG[2025-09-22 19:38:28.520][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-22 19:38:28.521][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-22 19:38:28.523][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-22 19:38:28.525][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:28.527][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:28.528][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:28.535][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:28.536][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:28.538][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:28.539][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:28.541][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:28.543][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:28.544][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.545][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.547][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:28.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:28.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.553][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 19:38:28.554][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 19:38:28.556][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.557][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.559][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 19:38:28.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 19:38:28.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.564][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 19:38:28.565][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 19:38:28.567][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.568][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.570][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 19:38:28.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 19:38:28.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.575][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 19:38:28.576][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 19:38:28.578][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.579][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.580][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 19:38:28.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 19:38:28.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.586][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 19:38:28.588][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 19:38:28.589][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.590][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.592][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 19:38:28.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 19:38:28.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.598][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-22 19:38:28.599][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-22 19:38:28.600][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.602][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.603][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 19:38:28.605][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:28.606][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.608][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.609][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 19:38:28.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:28.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.615][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:28.617][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:28.618][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.619][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.621][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:28.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:28.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.627][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-22 19:38:28.628][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 19:38:28.630][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.631][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.633][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-22 19:38:28.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 19:38:28.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.638][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 19:38:28.639][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 19:38:28.640][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.642][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.643][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 19:38:28.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 19:38:28.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.648][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 19:38:28.657][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 19:38:28.659][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.660][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.663][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 19:38:28.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 19:38:28.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.669][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:28.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:28.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.674][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:28.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:28.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.679][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:28.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:28.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.684][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:28.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:28.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.688][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:28.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:28.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.694][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:28.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:28.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.699][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:28.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:28.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.704][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:28.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:28.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.709][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:28.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:28.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.714][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:28.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:28.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:28.719][self$createEntryFromContent] Accession numbers: 176962.
biodb.TRACE[2025-09-22 19:38:28.720][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:28.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:28.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.725][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:28.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:28.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.730][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:28.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:28.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:28.736][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:28.736][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:28.737][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:28.745][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:28.746][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:28.747][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:28.749][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:28.750][private$loadEntries] Creating entries from ids [1]: "198655".
biodb.DEBUG[2025-09-22 19:38:28.751][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-22 19:38:28.753][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-22 19:38:28.757][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/198655.xml.
biodb.DEBUG[2025-09-22 19:38:28.758][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-22 19:38:28.760][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-22 19:38:28.762][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-22 19:38:28.764][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:28.765][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:28.766][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:28.774][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:28.775][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:28.776][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:28.777][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:28.780][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:28.782][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:28.783][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.784][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.786][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:28.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:28.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.791][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 19:38:28.793][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 19:38:28.794][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.795][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.797][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 19:38:28.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 19:38:28.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.802][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 19:38:28.804][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 19:38:28.805][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.806][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.808][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 19:38:28.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 19:38:28.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.814][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 19:38:28.815][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 19:38:28.816][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.817][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.819][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 19:38:28.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 19:38:28.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.832][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 19:38:28.834][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 19:38:28.836][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.837][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.839][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 19:38:28.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 19:38:28.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.844][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-22 19:38:28.846][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-22 19:38:28.847][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.848][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.850][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 19:38:28.851][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:28.852][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.853][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.855][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 19:38:28.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:28.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.860][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:28.862][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:28.863][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.864][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.866][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:28.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:28.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.872][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-22 19:38:28.874][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 19:38:28.875][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.877][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.879][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-22 19:38:28.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 19:38:28.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.884][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 19:38:28.885][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 19:38:28.886][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.887][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.889][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 19:38:28.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 19:38:28.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.895][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 19:38:28.896][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 19:38:28.897][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.899][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.900][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 19:38:28.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 19:38:28.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.906][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:28.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:28.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.911][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:28.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:28.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.916][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:28.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:28.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.921][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:28.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:28.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.926][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:28.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:28.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.932][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:28.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:28.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.937][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:28.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:28.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.943][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:28.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:28.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.948][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:28.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:28.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.953][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:28.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:28.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:28.958][self$createEntryFromContent] Accession numbers: 198655.
biodb.TRACE[2025-09-22 19:38:28.959][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:28.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:28.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.965][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:28.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:28.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:28.971][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:28.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:28.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:28.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:28.976][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:28.977][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:28.978][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:28.986][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:28.988][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:28.989][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:28.990][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:28.992][private$loadEntries] Creating entries from ids [1]: "215045".
biodb.DEBUG[2025-09-22 19:38:28.994][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-22 19:38:28.996][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-22 19:38:29.000][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/215045.xml.
biodb.DEBUG[2025-09-22 19:38:29.009][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-22 19:38:29.011][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-22 19:38:29.013][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-22 19:38:29.016][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:29.017][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:29.019][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:29.026][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:29.028][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:29.029][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:29.031][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[2025-09-22 19:38:29.034][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:29.035][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:29.036][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.037][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:29.039][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:29.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:29.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:29.045][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 19:38:29.047][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 19:38:29.048][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.049][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:29.051][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 19:38:29.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 19:38:29.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:29.056][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 19:38:29.057][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 19:38:29.058][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.060][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:29.062][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 19:38:29.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 19:38:29.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:29.067][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 19:38:29.069][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 19:38:29.070][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.071][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:29.073][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 19:38:29.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 19:38:29.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:29.079][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 19:38:29.080][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 19:38:29.082][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.083][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:29.085][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 19:38:29.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 19:38:29.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:29.090][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-22 19:38:29.092][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-22 19:38:29.093][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.094][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:29.096][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 19:38:29.097][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.099][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.100][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:29.102][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 19:38:29.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:29.107][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:29.109][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:29.110][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.111][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:29.113][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:29.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:29.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:29.118][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-22 19:38:29.120][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 19:38:29.121][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.122][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:29.124][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-22 19:38:29.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 19:38:29.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:29.130][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 19:38:29.131][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 19:38:29.132][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.133][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:29.135][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 19:38:29.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 19:38:29.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:29.141][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 19:38:29.142][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 19:38:29.143][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.145][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:29.146][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 19:38:29.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 19:38:29.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:29.151][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:29.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:29.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:29.157][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:29.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:29.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:29.163][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:29.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:29.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:29.168][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:29.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:29.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:29.173][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:29.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:29.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:29.178][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:29.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:29.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:29.192][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:29.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:29.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:29.198][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:29.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:29.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:29.203][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:29.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:29.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:29.208][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:29.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:29.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:29.213][self$createEntryFromContent] Accession numbers: 215045.
biodb.TRACE[2025-09-22 19:38:29.215][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:29.220][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:29.225][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-09-22 19:38:29.258][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-22 19:38:29.262][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-22 19:38:29.266][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-09-22 19:38:29.267][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-22 19:38:29.271][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:29.272][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:29.273][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:29.281][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:29.282][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:29.284][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:29.285][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:29.287][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:29.292][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:29.297][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:29.303][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:29.304][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:29.305][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:29.312][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:29.314][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:29.315][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:29.317][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:29.319][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:29.325][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:29.331][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:29.336][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:29.342][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:29.346][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:29.348][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:29.349][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:29.356][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:29.357][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:29.359][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:29.360][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:29.362][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:29.375][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:29.383][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:29.391][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:29.396][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:29.402][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:29.403][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:29.404][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:29.411][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:29.413][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:29.414][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:29.415][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:29.417][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:29.423][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:29.429][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:29.434][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:29.440][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:29.445][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:29.446][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:29.448][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:29.455][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:29.457][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:29.458][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:29.459][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:29.461][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:29.467][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:29.473][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:29.478][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:29.479][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:29.480][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:29.488][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:29.489][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:29.490][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:29.492][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:29.493][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:29.499][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:29.503][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:29.508][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:29.510][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:29.511][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:29.518][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:29.520][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:29.521][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:29.523][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:29.525][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:29.530][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:29.535][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:29.541][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:29.542][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:29.543][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:29.551][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:29.552][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:29.554][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:29.563][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:29.565][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:29.572][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:29.577][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:29.582][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:29.583][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:29.585][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:29.592][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:29.593][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:29.595][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:29.596][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:29.597][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:29.602][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:29.608][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:29.613][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:29.614][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:29.615][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:29.623][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:29.624][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:29.625][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:29.627][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:29.628][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:29.635][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:29.641][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:29.646][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:29.648][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:29.649][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:29.656][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:29.658][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:29.659][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:29.661][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:29.662][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:29.668][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:29.673][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:29.679][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:29.680][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:29.681][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:29.688][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:29.690][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:29.691][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:29.693][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:29.695][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:29.701][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:29.706][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:29.712][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:29.714][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:29.715][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:29.723][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:29.725][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:29.727][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:29.728][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:29.730][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:29.735][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:29.741][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:29.755][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:29.757][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:29.758][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:29.766][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:29.768][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:29.769][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:29.770][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:29.772][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:29.778][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:29.783][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:29.789][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:29.790][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:29.791][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:29.799][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:29.801][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:29.802][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:29.804][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:29.805][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:29.811][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:29.817][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:29.822][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:29.824][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:29.825][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:29.832][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:29.834][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:29.835][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:29.837][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:29.839][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:29.844][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:29.850][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:29.856][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:29.857][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:29.858][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:29.865][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:29.867][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:29.869][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:29.870][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:29.872][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:29.878][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:29.884][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:29.889][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:29.890][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:29.891][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:29.899][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:29.900][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:29.902][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:29.903][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:29.905][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:29.911][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:29.916][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:29.921][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:29.922][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:29.924][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:29.931][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:29.932][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:29.934][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:29.935][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:29.937][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:29.955][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:29.962][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:29.968][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:29.969][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:29.970][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:29.978][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:29.979][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:29.981][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:29.982][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:29.983][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:29.988][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:29.993][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:29.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:29.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:30.023][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:30.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:30.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:30.028][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:30.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:30.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:30.034][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:30.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:30.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:30.040][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:30.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:30.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:30.046][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:30.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:30.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-09-22 19:38:30.085][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-22 19:38:30.089][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-22 19:38:30.093][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/63dc67d905e130c19900bd338bad7ba9.content.
sched.DEBUG[2025-09-22 19:38:30.094][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-09-22 19:38:30.099][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39125*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-22 19:38:30.103][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-22 19:38:30.106][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/287cac4c6e727656d926f26e3952924c.content.
sched.DEBUG[2025-09-22 19:38:30.108][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-22 19:38:30.111][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:30.112][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:30.113][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:30.121][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:30.122][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:30.123][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:30.125][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:30.127][private$loadEntries] Creating entries from ids [1]: "4648".
biodb.DEBUG[2025-09-22 19:38:30.137][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-22 19:38:30.140][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-22 19:38:30.147][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4648.xml.
biodb.DEBUG[2025-09-22 19:38:30.149][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-22 19:38:30.151][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-22 19:38:30.153][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-22 19:38:30.156][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:30.157][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:30.159][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:30.166][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:30.168][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:30.169][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:30.171][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:30.174][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:30.176][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:30.177][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.178][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:30.180][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:30.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:30.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:30.185][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 19:38:30.186][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 19:38:30.187][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.189][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:30.190][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 19:38:30.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 19:38:30.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:30.195][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 19:38:30.197][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 19:38:30.198][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.199][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:30.201][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 19:38:30.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 19:38:30.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:30.206][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 19:38:30.207][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 19:38:30.209][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.210][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:30.212][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 19:38:30.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 19:38:30.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:30.217][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 19:38:30.219][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 19:38:30.220][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.222][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:30.223][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 19:38:30.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 19:38:30.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:30.229][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-22 19:38:30.230][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-22 19:38:30.232][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.233][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:30.235][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-22 19:38:30.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-22 19:38:30.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:30.240][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 19:38:30.242][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:30.243][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.244][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:30.246][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 19:38:30.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:30.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:30.252][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:30.254][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:30.255][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.256][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:30.258][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:30.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:30.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:30.264][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-22 19:38:30.266][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 19:38:30.267][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.268][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:30.270][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-22 19:38:30.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 19:38:30.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:30.275][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 19:38:30.276][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 19:38:30.278][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.279][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:30.281][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 19:38:30.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 19:38:30.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:30.287][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 19:38:30.288][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 19:38:30.289][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.291][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:30.293][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 19:38:30.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 19:38:30.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:30.299][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:30.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:30.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:30.306][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:30.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:30.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:30.312][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:30.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:30.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:30.317][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:30.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:30.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:30.331][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:30.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:30.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:30.337][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:30.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:30.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:30.342][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:30.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:30.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:30.348][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:30.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:30.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:30.352][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:30.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:30.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:30.358][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:30.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:30.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:30.363][self$createEntryFromContent] Accession numbers: 4648.
biodb.TRACE[2025-09-22 19:38:30.365][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:30.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:30.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:30.370][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:30.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:30.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:30.376][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:30.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:30.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:30.381][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:30.383][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:30.384][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:30.392][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:30.393][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:30.395][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:30.396][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.TRACE[2025-09-22 19:38:30.398][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:30.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:30.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:30.404][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:30.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:30.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:30.410][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:30.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:30.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:30.416][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:30.417][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:30.418][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:30.425][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:30.427][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:30.428][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:30.429][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[2025-09-22 19:38:30.431][private$loadEntries] Creating entries from ids [1]: "62447".
biodb.DEBUG[2025-09-22 19:38:30.432][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-22 19:38:30.434][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-22 19:38:30.438][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62447.xml.
biodb.DEBUG[2025-09-22 19:38:30.440][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-22 19:38:30.442][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-22 19:38:30.444][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-22 19:38:30.446][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:30.448][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:30.449][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:30.456][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:30.458][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:30.459][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:30.461][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:30.464][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:30.466][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:30.467][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.468][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:30.470][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:30.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:30.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:30.476][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 19:38:30.477][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 19:38:30.478][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.480][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:30.481][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 19:38:30.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 19:38:30.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:30.486][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 19:38:30.488][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 19:38:30.489][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.491][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:30.492][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 19:38:30.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 19:38:30.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:30.512][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 19:38:30.514][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 19:38:30.515][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.517][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:30.518][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 19:38:30.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 19:38:30.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:30.534][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 19:38:30.536][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 19:38:30.537][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.539][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:30.541][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 19:38:30.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 19:38:30.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:30.547][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-22 19:38:30.549][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-22 19:38:30.550][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.551][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:30.553][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 19:38:30.555][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:30.556][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.558][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:30.559][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 19:38:30.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:30.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:30.565][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:30.567][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:30.568][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.569][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:30.571][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:30.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:30.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:30.576][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-22 19:38:30.578][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 19:38:30.579][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.580][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:30.582][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-22 19:38:30.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 19:38:30.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:30.588][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 19:38:30.589][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 19:38:30.591][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.592][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:30.594][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 19:38:30.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 19:38:30.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:30.599][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 19:38:30.601][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 19:38:30.602][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.603][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:30.605][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 19:38:30.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 19:38:30.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:30.611][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:30.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:30.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:30.616][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:30.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:30.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:30.621][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:30.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:30.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:30.626][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:30.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:30.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:30.632][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:30.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:30.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:30.637][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:30.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:30.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:30.642][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:30.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:30.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:30.648][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:30.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:30.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:30.654][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:30.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:30.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:30.658][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:30.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:30.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:30.664][self$createEntryFromContent] Accession numbers: 62447.
biodb.TRACE[2025-09-22 19:38:30.665][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:30.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:30.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:30.670][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:30.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:30.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:30.676][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:30.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:30.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-09-22 19:38:30.718][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-22 19:38:30.723][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-22 19:38:30.727][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-09-22 19:38:30.729][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-22 19:38:30.733][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:30.735][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:30.736][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:30.744][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:30.746][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:30.747][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:30.748][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:30.750][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:30.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:30.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:30.756][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:30.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:30.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:30.762][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:30.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:30.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:30.767][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:30.768][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:30.769][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:30.777][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:30.778][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:30.779][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:30.781][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:30.782][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:30.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:30.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:30.788][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:30.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:30.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:30.794][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:30.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:30.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:30.799][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:30.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:30.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:30.804][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:30.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:30.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:30.811][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:30.812][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:30.813][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:30.821][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:30.823][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:30.824][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:30.826][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:30.827][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:30.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:30.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:30.833][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:30.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:30.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:30.838][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:30.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:30.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:30.844][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:30.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:30.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:30.850][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:30.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:30.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:30.856][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:30.857][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:30.858][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:30.866][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:30.867][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:30.869][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:30.870][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:30.872][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:30.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:30.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:30.877][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:30.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:30.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:30.883][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:30.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:30.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:30.888][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:30.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:30.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:30.894][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:30.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:30.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:30.900][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:30.907][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:30.909][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:30.918][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:30.919][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:30.921][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:30.922][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:30.924][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:30.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:30.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:30.929][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:30.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:30.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:30.934][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:30.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:30.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:30.940][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:30.941][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:30.942][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:30.950][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:30.952][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:30.953][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:30.955][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:30.956][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:30.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:30.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:30.962][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:30.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:30.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:30.968][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:30.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:30.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:30.973][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:30.974][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:30.976][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:30.984][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:30.986][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:30.987][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:30.989][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:30.991][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:30.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:30.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:30.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:30.997][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:30.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:30.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:31.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:31.003][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:31.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:31.008][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:31.010][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:31.011][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:31.018][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:31.020][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:31.021][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:31.023][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:31.024][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:31.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:31.029][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:31.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:31.034][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:31.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:31.039][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:31.040][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:31.041][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:31.049][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:31.050][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:31.051][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:31.052][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:31.054][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:31.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:31.059][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:31.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:31.064][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:31.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:31.069][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:31.070][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:31.072][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:31.078][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:31.079][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:31.080][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:31.081][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:31.083][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:31.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:31.096][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:31.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:31.103][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:31.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:31.108][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:31.110][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:31.111][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:31.118][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:31.119][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:31.121][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:31.122][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:31.124][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:31.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:31.129][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:31.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:31.135][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:31.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:31.140][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:31.141][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:31.141][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:31.149][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:31.151][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:31.152][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:31.153][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:31.155][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:31.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:31.161][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:31.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:31.167][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:31.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:31.172][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:31.174][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:31.175][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:31.186][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:31.188][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:31.189][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:31.190][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:31.192][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:31.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:31.198][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:31.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:31.204][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:31.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:31.209][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:31.210][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:31.211][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:31.219][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:31.221][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:31.222][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:31.223][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:31.225][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:31.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:31.231][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:31.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:31.236][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:31.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:31.242][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:31.243][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:31.244][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:31.252][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:31.253][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:31.255][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:31.256][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:31.257][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:31.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:31.262][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:31.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:31.267][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:31.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:31.272][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:31.273][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:31.274][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:31.289][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:31.290][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:31.292][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:31.293][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:31.295][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:31.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:31.299][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:31.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:31.304][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:31.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:31.309][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:31.310][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:31.311][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:31.318][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:31.320][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:31.321][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:31.322][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:31.323][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:31.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:31.329][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:31.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:31.334][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:31.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:31.339][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:31.339][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:31.340][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:31.348][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:31.349][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:31.350][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:31.352][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:31.353][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:31.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:31.358][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:31.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:31.364][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:31.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:31.369][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:31.371][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:31.372][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:31.380][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:31.381][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:31.383][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:31.384][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:31.386][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:31.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:31.392][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:31.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:31.397][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:31.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:31.403][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:31.404][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:31.405][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:31.412][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:31.414][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:31.415][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:31.416][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:31.418][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:31.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:31.423][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:31.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:31.429][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:31.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-09-22 19:38:31.460][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-22 19:38:31.472][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-22 19:38:31.476][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-09-22 19:38:31.478][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-22 19:38:31.482][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:31.484][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:31.485][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:31.493][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:31.495][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:31.496][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:31.498][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:31.500][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:31.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:31.505][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:31.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:31.511][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:31.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:31.516][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:31.517][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:31.518][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:31.526][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:31.528][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:31.529][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:31.531][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:31.532][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:31.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:31.537][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:31.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:31.543][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:31.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:31.549][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:31.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:31.554][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:31.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:31.558][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:31.559][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:31.560][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:31.567][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:31.569][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:31.570][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:31.571][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:31.573][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:31.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:31.678][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:31.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:31.684][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:31.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:31.689][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:31.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:31.695][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:31.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:31.700][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:31.701][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:31.702][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:31.710][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:31.712][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:31.713][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:31.715][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:31.716][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:31.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:31.721][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:31.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:31.745][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:31.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:31.751][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:31.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:31.760][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:31.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:31.769][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:31.771][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:31.772][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:31.786][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:31.788][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:31.789][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:31.790][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:31.792][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:31.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:31.798][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:31.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:31.803][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:31.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:31.809][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:31.810][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:31.811][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:31.818][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:31.820][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:31.821][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:31.822][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:31.824][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:31.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:31.828][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:31.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:31.833][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:31.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:31.838][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:31.840][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:31.841][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:31.848][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:31.850][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:31.851][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:31.852][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:31.854][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:31.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:31.860][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:31.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:31.865][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:31.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:31.870][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:31.871][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:31.872][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:31.880][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:31.882][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:31.883][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:31.889][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:31.891][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:31.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:31.905][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:31.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:31.957][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:31.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:31.962][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:31.963][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:31.965][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:31.973][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:31.974][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:31.976][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:31.977][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:31.979][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:31.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:31.985][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:31.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:31.990][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:31.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:31.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:31.996][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:31.997][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:31.999][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:32.006][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:32.008][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:32.009][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:32.010][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:32.012][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:32.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:32.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:32.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:32.025][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:32.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:32.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:32.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:32.032][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:32.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:32.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:32.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:32.038][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:32.039][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:32.040][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:32.047][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:32.049][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:32.050][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:32.052][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:32.053][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:32.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:32.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:32.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:32.059][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:32.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:32.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:32.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:32.063][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:32.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:32.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:32.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:32.068][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:32.069][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:32.070][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:32.078][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:32.080][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:32.081][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:32.082][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:32.084][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:32.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:32.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:32.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:32.090][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:32.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:32.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:32.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:32.096][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:32.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:32.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:32.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:32.101][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:32.102][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:32.104][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:32.111][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:32.113][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:32.114][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:32.115][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:32.117][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:32.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:32.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:32.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:32.122][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:32.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:32.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:32.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:32.128][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:32.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:32.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:32.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:32.133][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:32.134][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:32.135][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:32.143][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:32.144][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:32.146][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:32.147][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:32.149][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:32.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:32.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:32.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:32.155][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:32.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:32.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:32.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:32.160][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:32.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:32.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:32.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:32.166][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:32.167][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:32.169][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:32.178][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:32.180][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:32.181][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:32.182][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:32.184][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:32.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:32.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:32.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:32.189][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:32.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:32.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:32.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:32.194][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:32.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:32.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:32.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:32.199][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:32.200][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:32.202][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:32.219][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:32.221][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:32.223][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:32.225][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:32.227][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:32.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:32.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:32.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:32.233][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:32.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:32.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:32.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:32.238][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:32.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:32.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:32.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:32.243][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:32.244][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:32.245][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:32.252][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:32.254][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:32.255][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:32.257][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:32.258][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:32.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:32.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:32.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:32.264][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:32.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:32.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:32.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:32.270][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:32.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:32.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:32.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:32.275][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:32.276][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:32.277][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:32.284][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:32.286][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:32.287][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:32.289][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:32.290][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:32.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:32.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:32.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:32.295][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:32.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:32.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:32.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:32.299][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:32.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:32.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:32.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:32.305][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:32.306][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:32.308][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:32.316][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:32.318][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:32.319][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:32.321][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:32.322][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:32.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:32.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:32.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:32.328][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:32.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:32.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:32.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:32.333][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:32.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:32.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:32.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:32.338][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:32.339][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:32.340][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:32.348][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:32.349][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:32.351][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:32.352][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:32.353][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:32.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:32.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:32.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:32.359][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:32.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:32.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:32.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:32.365][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:32.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:32.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:32.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:32.393][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-09-22 19:38:32.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-09-22 19:38:32.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:32.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-09-22 19:38:32.420][biodb::testThat]
biodb.INFO [2025-09-22 19:38:32.421][biodb::testThat] Running test function  test_annotateMzValues_input_vector  (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2025-09-22 19:38:32.422][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-22 19:38:32.424][biodb::testThat]
biodb.TRACE[2025-09-22 19:38:32.428][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-09-22 19:38:32.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-09-22 19:38:32.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:32.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:32.434][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:32.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:32.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:32.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:32.440][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:32.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:32.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:32.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:32.444][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:32.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:32.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:32.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:32.450][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:32.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:32.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:32.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:32.459][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:32.460][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:32.461][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:32.468][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:32.470][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:32.471][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:32.472][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-09-22 19:38:32.476][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-22 19:38:32.479][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-22 19:38:32.482][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-09-22 19:38:32.483][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-22 19:38:32.487][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:32.488][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:32.489][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:32.496][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:32.498][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:32.499][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:32.500][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:32.502][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:32.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:32.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:32.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:32.507][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:32.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:32.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:32.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:32.514][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:32.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:32.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:32.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-09-22 19:38:32.520][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-22 19:38:32.523][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-22 19:38:32.526][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-09-22 19:38:32.528][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-22 19:38:32.531][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:32.532][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:32.533][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:32.541][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:32.543][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:32.544][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:32.546][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:32.547][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:32.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:32.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:32.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:32.552][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:32.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:32.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:32.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:32.557][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:32.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:32.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:32.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:32.562][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:32.563][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:32.564][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:32.572][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:32.573][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:32.574][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:32.575][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:32.577][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:32.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:32.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:32.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:32.582][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:32.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:32.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:32.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:32.597][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:32.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:32.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:32.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:32.604][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-09-22 19:38:32.606][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:32.607][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:32.608][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:32.615][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:32.617][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:32.618][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:32.619][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:32.621][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:32.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:32.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:32.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:32.626][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:32.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:32.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:32.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:32.632][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 19:38:32.633][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-22 19:38:32.634][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-22 19:38:32.635][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-22 19:38:32.637][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 19:38:32.638][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:32.639][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:32.640][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:32.642][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:32.643][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:32.644][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:32.645][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:32.646][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:32.648][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 19:38:32.649][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 19:38:32.650][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:32.652][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:32.653][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:32.654][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:32.656][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-22 19:38:32.657][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:32.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:32.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:32.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:32.662][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:32.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:32.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:32.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:32.668][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:32.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:32.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:32.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:32.687][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-09-22 19:38:32.689][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:32.690][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:32.692][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:32.699][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:32.700][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:32.702][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:32.703][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:32.704][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:32.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:32.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:32.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:32.709][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:32.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:32.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:32.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:32.714][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 19:38:32.716][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-22 19:38:32.717][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-22 19:38:32.718][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-22 19:38:32.720][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 19:38:32.721][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:32.722][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:32.723][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:32.725][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:32.726][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:32.727][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:32.729][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:32.730][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:32.731][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 19:38:32.733][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 19:38:32.734][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:32.735][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:32.736][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:32.738][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:32.739][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-22 19:38:32.741][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:32.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:32.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:32.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:32.746][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:32.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:32.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:32.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:32.751][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:32.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:32.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:32.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:32.757][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-09-22 19:38:32.766][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:32.768][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:32.769][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:32.777][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:32.779][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:32.780][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:32.782][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:32.783][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:32.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:32.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:32.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:32.788][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:32.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:32.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:32.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:32.793][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 19:38:32.795][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-22 19:38:32.796][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-22 19:38:32.797][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-22 19:38:32.798][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 19:38:32.800][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:32.801][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:32.802][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:32.803][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:32.804][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:32.806][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:32.807][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:32.808][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:32.810][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 19:38:32.812][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 19:38:32.813][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:32.814][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:32.816][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:32.817][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:32.818][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-22 19:38:32.820][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:32.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:32.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:32.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:32.826][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:32.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:32.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:32.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:32.831][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:32.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:32.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:32.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:32.837][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-09-22 19:38:32.838][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-09-22 19:38:32.839][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-09-22 19:38:32.852][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:32.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:32.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:32.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:32.858][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:32.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:32.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:32.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:32.864][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:32.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:32.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:32.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:32.869][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:32.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:32.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:32.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:32.960][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:32.961][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:32.963][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:32.970][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:32.972][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:32.973][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:32.974][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-09-22 19:38:32.978][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-22 19:38:32.981][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-22 19:38:32.984][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-09-22 19:38:32.985][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-09-22 19:38:32.990][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-22 19:38:32.993][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-22 19:38:32.997][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-09-22 19:38:32.998][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-22 19:38:33.001][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:33.003][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:33.004][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:33.012][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:33.013][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:33.015][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:33.016][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:33.018][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:33.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:33.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:33.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:33.024][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:33.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:33.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:33.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:33.029][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:33.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:33.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:33.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:33.035][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:33.036][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:33.037][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:33.045][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:33.046][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:33.047][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:33.049][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:33.051][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:33.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:33.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:33.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:33.056][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:33.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:33.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:33.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:33.060][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:33.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:33.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:33.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:33.066][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:33.067][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:33.068][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:33.074][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:33.076][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:33.077][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:33.078][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:33.079][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:33.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:33.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:33.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:33.085][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:33.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:33.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:33.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:33.090][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:33.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:33.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:33.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:33.140][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-09-22 19:38:33.178][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:33.180][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:33.181][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:33.189][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:33.191][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:33.192][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:33.194][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:33.195][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:33.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:33.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:33.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:33.201][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:33.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:33.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:33.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:33.207][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 19:38:33.209][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-22 19:38:33.210][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-22 19:38:33.211][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-22 19:38:33.212][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 19:38:33.214][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:33.215][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:33.216][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:33.217][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:33.218][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:33.220][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:33.221][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:33.222][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:33.224][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 19:38:33.225][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 19:38:33.226][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:33.227][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:33.229][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:33.230][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:33.231][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-22 19:38:33.233][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:33.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:33.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:33.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:33.238][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:33.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:33.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:33.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:33.243][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:33.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:33.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:33.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:33.249][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-09-22 19:38:33.251][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:33.252][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:33.253][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:33.261][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:33.263][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:33.264][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:33.266][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[2025-09-22 19:38:33.293][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:33.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:33.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:33.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:33.299][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:33.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:33.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:33.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:33.335][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 19:38:33.337][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-22 19:38:33.338][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-22 19:38:33.339][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-22 19:38:33.340][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 19:38:33.342][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:33.343][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:33.344][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:33.345][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:33.346][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:33.347][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:33.348][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:33.350][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:33.351][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 19:38:33.366][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 19:38:33.368][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:33.369][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:33.370][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:33.371][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:33.372][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-22 19:38:33.374][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:33.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:33.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:33.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:33.379][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:33.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:33.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:33.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:33.384][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:33.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:33.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:33.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:33.391][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-09-22 19:38:33.392][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:33.393][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:33.394][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:33.401][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:33.402][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:33.404][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:33.405][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:33.407][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:33.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:33.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:33.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:33.414][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:33.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:33.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:33.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:33.419][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 19:38:33.420][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-22 19:38:33.422][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-22 19:38:33.423][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-22 19:38:33.424][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 19:38:33.433][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:33.435][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:33.437][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:33.438][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:33.440][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:33.442][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:33.443][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:33.445][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:33.446][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 19:38:33.447][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 19:38:33.449][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:33.450][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:33.451][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:33.453][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:33.454][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-22 19:38:33.455][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:33.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:33.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:33.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:33.461][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:33.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:33.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:33.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:33.466][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:33.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:33.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:33.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:33.472][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-09-22 19:38:33.473][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-09-22 19:38:33.474][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-09-22 19:38:33.488][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-09-22 19:38:33.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-09-22 19:38:33.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:33.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-09-22 19:38:33.499][biodb::testThat]
biodb.INFO [2025-09-22 19:38:33.500][biodb::testThat] Running test function  test_annotateMzValues_ppm_tol  (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2025-09-22 19:38:33.502][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-22 19:38:33.503][biodb::testThat]
biodb.TRACE[2025-09-22 19:38:33.507][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-09-22 19:38:33.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-09-22 19:38:33.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:33.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:33.512][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:33.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:33.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:33.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:33.517][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:33.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:33.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:33.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:33.522][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:33.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:33.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:33.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:33.527][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:33.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:33.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:33.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:33.535][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:33.536][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:33.538][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:33.544][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:33.546][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:33.547][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:33.548][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-09-22 19:38:33.552][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-22 19:38:33.556][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-22 19:38:33.558][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-09-22 19:38:33.560][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-22 19:38:33.564][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:33.565][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:33.566][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:33.574][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:33.576][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:33.577][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:33.578][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:33.579][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:33.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:33.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:33.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:33.585][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:33.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:33.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:33.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:33.590][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:33.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:33.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:33.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-09-22 19:38:33.596][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-22 19:38:33.599][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-22 19:38:33.602][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-09-22 19:38:33.603][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-22 19:38:33.615][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:33.617][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:33.619][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:33.627][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:33.629][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:33.631][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:33.632][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:33.633][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:33.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:33.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:33.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:33.639][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:33.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:33.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:33.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:33.644][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:33.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:33.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:33.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:33.650][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:33.651][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:33.652][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:33.658][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:33.659][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:33.661][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:33.662][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:33.663][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:33.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:33.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:33.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:33.684][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:33.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:33.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:33.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:33.688][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:33.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:33.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:33.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:33.694][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-09-22 19:38:33.696][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:33.697][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:33.698][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:33.705][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:33.706][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:33.708][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:33.709][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:33.711][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:33.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:33.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:33.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:33.716][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:33.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:33.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:33.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:33.721][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 19:38:33.722][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-22 19:38:33.723][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-22 19:38:33.724][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-22 19:38:33.726][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 19:38:33.727][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:33.728][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:33.730][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:33.731][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:33.732][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:33.734][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:33.735][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:33.736][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:33.737][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 19:38:33.738][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 19:38:33.740][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:33.741][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:33.742][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:33.744][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:33.745][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-22 19:38:33.746][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:33.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:33.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:33.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:33.752][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:33.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:33.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:33.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:33.757][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:33.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:33.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:33.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:33.763][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-09-22 19:38:33.765][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:33.765][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:33.766][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:33.773][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:33.774][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:33.775][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:33.776][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.TRACE[2025-09-22 19:38:33.777][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:33.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:33.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:33.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:33.782][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:33.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:33.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:33.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:33.787][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 19:38:33.787][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-22 19:38:33.789][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-22 19:38:33.790][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-22 19:38:33.798][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 19:38:33.800][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:33.801][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:33.803][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:33.804][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:33.806][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:33.807][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:33.809][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:33.810][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:33.811][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 19:38:33.813][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 19:38:33.814][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:33.815][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:33.816][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:33.817][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:33.818][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-22 19:38:33.819][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:33.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:33.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:33.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:33.824][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:33.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:33.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:33.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:33.828][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:33.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:33.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:33.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:33.833][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-09-22 19:38:33.834][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:33.835][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:33.837][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:33.843][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:33.845][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:33.846][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:33.847][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:33.848][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:33.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:33.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:33.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:33.852][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:33.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:33.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:33.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:33.857][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 19:38:33.858][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-22 19:38:33.860][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-22 19:38:33.861][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-22 19:38:33.862][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 19:38:33.864][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:33.865][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:33.867][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:33.868][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:33.869][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:33.871][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:33.872][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:33.873][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:33.874][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 19:38:33.876][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 19:38:33.877][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:33.878][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:33.879][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:33.880][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:33.881][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-22 19:38:33.882][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:33.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:33.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:33.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:33.887][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:33.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:33.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:33.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:33.891][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:33.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:33.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:33.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:33.896][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-09-22 19:38:33.897][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-09-22 19:38:33.899][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-09-22 19:38:33.911][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:33.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:33.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:33.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:33.918][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:33.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:33.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:33.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:33.924][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:33.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:33.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:33.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:33.929][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:33.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:33.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:33.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:33.937][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:33.938][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:33.939][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:33.946][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:33.948][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:33.949][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:33.950][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-09-22 19:38:34.120][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-22 19:38:34.123][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-22 19:38:34.126][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-09-22 19:38:34.127][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-09-22 19:38:34.130][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-22 19:38:34.133][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-22 19:38:34.136][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-09-22 19:38:34.137][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-22 19:38:34.140][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:34.141][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:34.142][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:34.149][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:34.150][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:34.152][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:34.153][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:34.154][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:34.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:34.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:34.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:34.159][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:34.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:34.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:34.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:34.164][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:34.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:34.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:34.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:34.169][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:34.170][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:34.171][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:34.178][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:34.179][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:34.180][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:34.182][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:34.183][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:34.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:34.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:34.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:34.188][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:34.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:34.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:34.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:34.193][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:34.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:34.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:34.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:34.198][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:34.199][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:34.200][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:34.206][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:34.208][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:34.209][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:34.211][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:34.212][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:34.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:34.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:34.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:34.217][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:34.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:34.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:34.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:34.222][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:34.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:34.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:34.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:34.227][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-09-22 19:38:34.229][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:34.230][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:34.231][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:34.238][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:34.239][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:34.240][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:34.242][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:34.243][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:34.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:34.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:34.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:34.247][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:34.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:34.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:34.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:34.252][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 19:38:34.253][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-22 19:38:34.254][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-22 19:38:34.256][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-22 19:38:34.257][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 19:38:34.258][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:34.259][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:34.260][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:34.261][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:34.262][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:34.263][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:34.264][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:34.265][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:34.266][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 19:38:34.268][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 19:38:34.269][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:34.270][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:34.272][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:34.273][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:34.274][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-22 19:38:34.275][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:34.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:34.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:34.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:34.280][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:34.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:34.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:34.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:34.286][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:34.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:34.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:34.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:34.291][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-09-22 19:38:34.292][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:34.294][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:34.295][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:34.302][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:34.303][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:34.304][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:34.306][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:34.307][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:34.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:34.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:34.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:34.312][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:34.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:34.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:34.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:34.317][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 19:38:34.318][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-22 19:38:34.319][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-22 19:38:34.320][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-22 19:38:34.321][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 19:38:34.323][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:34.324][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:34.326][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:34.327][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:34.329][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:34.330][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:34.332][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:34.333][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:34.334][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 19:38:34.336][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 19:38:34.337][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:34.339][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:34.340][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:34.342][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:34.343][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-22 19:38:34.344][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:34.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:34.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:34.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:34.349][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:34.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:34.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:34.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:34.354][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:34.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:34.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:34.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:34.360][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-09-22 19:38:34.362][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:34.363][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:34.364][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:34.372][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:34.373][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:34.374][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:34.375][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:34.377][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:34.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:34.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:34.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:34.382][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:34.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:34.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:34.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:34.387][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 19:38:34.389][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-22 19:38:34.390][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-22 19:38:34.391][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-22 19:38:34.392][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 19:38:34.393][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:34.394][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:34.395][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:34.396][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:34.398][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:34.399][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:34.401][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:34.402][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:34.403][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 19:38:34.404][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 19:38:34.405][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:34.406][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:34.408][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:34.409][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:34.410][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-22 19:38:34.412][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:34.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:34.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:34.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:34.417][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:34.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:34.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:34.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:34.422][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:34.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:34.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:34.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:34.429][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-09-22 19:38:34.430][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-09-22 19:38:34.431][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-09-22 19:38:34.444][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-09-22 19:38:34.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-09-22 19:38:34.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:34.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-09-22 19:38:34.457][biodb::testThat]
biodb.INFO [2025-09-22 19:38:34.458][biodb::testThat] Running test function  test_annotateMzValues_input_dataframe_untouched  (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2025-09-22 19:38:34.460][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-22 19:38:34.461][biodb::testThat]
biodb.TRACE[2025-09-22 19:38:34.466][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-09-22 19:38:34.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-09-22 19:38:34.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:34.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:34.471][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:34.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:34.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:34.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:34.476][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:34.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:34.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:34.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:34.481][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:34.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:34.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:34.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:34.486][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:34.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:34.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:34.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:34.497][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:34.499][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:34.500][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:34.509][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:34.510][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:34.511][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:34.512][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-09-22 19:38:34.516][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-22 19:38:34.520][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-22 19:38:34.522][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-09-22 19:38:34.524][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-22 19:38:34.527][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:34.528][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:34.536][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:34.542][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:34.544][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:34.545][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:34.546][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:34.548][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:34.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:34.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:34.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:34.552][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:34.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:34.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:34.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:34.556][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:34.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:34.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:34.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-09-22 19:38:34.561][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-22 19:38:34.565][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-22 19:38:34.567][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-09-22 19:38:34.568][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-22 19:38:34.571][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:34.572][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:34.573][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:34.580][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:34.582][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:34.583][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:34.584][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:34.586][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:34.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:34.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:34.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:34.591][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:34.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:34.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:34.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:34.595][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:34.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:34.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:34.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:34.601][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:34.602][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:34.603][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:34.609][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:34.611][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:34.612][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:34.613][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:34.615][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:34.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:34.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:34.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:34.620][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:34.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:34.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:34.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:34.625][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:34.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:34.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:34.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:34.630][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-09-22 19:38:34.632][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:34.633][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:34.634][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:34.640][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:34.641][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:34.642][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:34.644][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:34.645][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:34.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:34.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:34.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:34.651][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:34.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:34.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:34.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:34.656][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 19:38:34.657][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-22 19:38:34.659][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-22 19:38:34.660][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-22 19:38:34.661][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 19:38:34.662][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:34.664][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:34.665][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:34.666][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:34.667][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:34.668][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:34.669][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:34.670][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:34.671][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 19:38:34.673][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 19:38:34.674][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:34.675][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:34.677][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:34.678][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:34.679][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-22 19:38:34.680][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:34.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:34.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:34.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:34.685][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:34.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:34.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:34.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:34.691][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:34.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:34.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:34.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:34.696][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-09-22 19:38:34.697][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:34.699][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:34.700][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:34.707][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:34.709][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:34.710][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:34.711][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:34.713][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:34.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:34.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:34.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:34.718][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:34.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:34.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:34.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:34.723][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 19:38:34.724][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-22 19:38:34.725][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-22 19:38:34.726][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-22 19:38:34.728][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 19:38:34.729][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:34.730][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:34.731][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:34.733][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:34.734][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:34.736][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:34.737][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:34.738][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:34.739][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 19:38:34.741][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 19:38:34.742][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:34.743][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:34.745][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:34.746][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:34.747][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-22 19:38:34.748][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:34.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:34.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:34.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:34.753][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:34.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:34.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:34.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:34.757][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:34.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:34.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:34.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:34.763][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-09-22 19:38:34.765][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:34.765][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:34.766][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:34.773][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:34.775][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:34.776][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:34.777][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:34.779][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:34.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:34.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:34.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:34.784][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:34.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:34.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:34.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:34.789][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 19:38:34.790][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-22 19:38:34.791][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-22 19:38:34.792][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-22 19:38:34.794][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 19:38:34.795][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:34.797][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:34.798][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:34.799][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:34.801][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:34.802][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:34.804][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:34.805][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:34.806][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 19:38:34.808][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 19:38:34.809][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:34.810][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:34.811][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:34.813][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:34.814][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-22 19:38:34.815][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:34.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:34.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:34.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:34.821][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:34.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:34.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:34.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:34.826][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:34.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:34.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:34.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:34.833][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-09-22 19:38:34.834][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-09-22 19:38:34.835][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-09-22 19:38:34.865][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:34.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:34.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:34.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:34.872][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:34.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:34.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:34.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:34.877][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:34.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:34.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:34.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:34.883][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:34.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:34.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:34.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:34.894][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:34.895][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:34.897][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:34.904][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:34.906][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:34.907][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:34.909][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-09-22 19:38:34.912][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-22 19:38:34.915][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-22 19:38:34.918][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-09-22 19:38:34.920][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-09-22 19:38:34.923][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-22 19:38:34.927][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-22 19:38:34.931][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-09-22 19:38:34.932][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-22 19:38:34.935][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:34.937][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:34.938][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:34.946][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:34.947][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:34.949][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:34.958][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:34.960][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:34.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:34.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:34.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:34.966][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:34.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:34.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:34.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:34.971][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:34.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:34.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:34.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:34.976][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:34.978][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:34.979][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:34.987][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:34.988][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:34.990][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:34.991][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:34.993][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:34.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:34.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:34.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:34.998][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:34.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:35.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.002][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:35.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:35.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:35.008][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:35.008][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:35.010][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:35.017][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:35.018][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:35.019][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:35.020][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:35.021][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:35.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:35.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.025][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:35.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:35.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.030][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:35.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:35.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:35.036][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-09-22 19:38:35.038][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:35.039][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:35.040][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:35.047][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:35.048][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:35.049][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:35.051][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:35.053][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:35.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:35.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.058][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:35.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:35.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.062][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 19:38:35.063][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-22 19:38:35.064][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-22 19:38:35.065][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-22 19:38:35.066][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 19:38:35.067][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:35.068][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:35.069][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.070][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.072][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:35.073][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:35.074][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.075][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.076][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 19:38:35.077][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 19:38:35.078][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:35.080][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:35.081][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.082][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.083][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-22 19:38:35.085][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:35.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:35.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.090][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:35.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:35.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.095][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:35.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:35.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.100][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-09-22 19:38:35.102][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:35.102][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:35.103][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:35.110][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:35.111][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:35.112][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:35.114][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:35.115][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:35.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:35.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.121][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:35.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:35.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.126][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 19:38:35.128][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-22 19:38:35.129][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-22 19:38:35.130][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-22 19:38:35.132][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 19:38:35.133][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:35.134][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:35.135][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.137][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.138][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:35.139][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:35.141][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.142][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.143][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 19:38:35.145][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 19:38:35.146][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:35.148][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:35.149][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.150][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.151][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-22 19:38:35.153][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:35.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:35.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.177][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:35.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:35.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.182][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:35.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:35.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.188][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-09-22 19:38:35.189][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:35.191][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:35.192][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:35.199][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:35.201][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:35.202][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:35.204][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:35.205][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:35.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:35.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.211][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:35.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:35.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.217][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 19:38:35.219][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-22 19:38:35.220][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-22 19:38:35.221][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-22 19:38:35.223][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 19:38:35.224][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:35.226][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:35.227][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.229][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.230][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:35.231][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:35.232][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.233][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.235][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 19:38:35.236][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 19:38:35.236][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:35.238][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:35.239][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.240][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.242][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-22 19:38:35.243][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:35.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:35.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.248][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:35.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:35.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.253][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:35.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:35.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.258][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-09-22 19:38:35.259][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-09-22 19:38:35.260][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-09-22 19:38:35.287][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-09-22 19:38:35.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-09-22 19:38:35.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-09-22 19:38:35.298][biodb::testThat]
biodb.INFO [2025-09-22 19:38:35.299][biodb::testThat] Running test function  test.wrong.entry  (" Wrong entry gives NULL ").
biodb.INFO [2025-09-22 19:38:35.300][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-22 19:38:35.301][biodb::testThat]
biodb.DEBUG[2025-09-22 19:38:35.303][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2025-09-22 19:38:35.305][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-22 19:38:35.306][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-22 19:38:35.309][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGA.xml.
biodb.DEBUG[2025-09-22 19:38:35.310][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-22 19:38:35.311][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-22 19:38:35.312][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-22 19:38:35.314][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:35.315][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:35.316][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:35.323][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:35.324][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:35.325][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:35.326][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:35.329][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:35.330][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:35.332][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.333][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.335][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:35.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:35.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.340][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 19:38:35.341][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 19:38:35.342][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.343][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.345][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 19:38:35.346][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 19:38:35.347][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.348][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.349][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 19:38:35.350][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 19:38:35.351][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.352][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.354][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 19:38:35.355][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 19:38:35.356][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.357][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.359][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-22 19:38:35.360][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-22 19:38:35.361][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.363][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.364][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 19:38:35.366][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:35.367][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.368][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.369][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:35.371][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:35.372][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.373][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.382][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-22 19:38:35.383][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 19:38:35.385][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.386][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.388][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 19:38:35.390][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 19:38:35.391][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.392][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.394][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 19:38:35.395][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 19:38:35.396][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.397][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.399][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:35.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:35.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.404][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:35.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:35.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.409][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:35.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:35.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.414][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:35.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:35.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.419][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:35.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:35.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.424][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:35.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:35.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.428][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:35.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:35.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.433][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:35.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:35.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.437][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:35.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:35.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.441][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:35.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:35.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:35.446][self$createEntryFromContent] Accession numbers: .
biodb.DEBUG[2025-09-22 19:38:35.447][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2025-09-22 19:38:35.458][biodb::testThat]
biodb.INFO [2025-09-22 19:38:35.459][biodb::testThat] Running test function  test.wrong.entry.among.good.ones  (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2025-09-22 19:38:35.460][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-22 19:38:35.462][biodb::testThat]
biodb.DEBUG[2025-09-22 19:38:35.472][function(conn, opt)] IDS: [4]: "WRONGB, 15440, 2528, 7799"
biodb.DEBUG[2025-09-22 19:38:35.474][private$loadEntries] Creating entries from ids [3]: "WRONGB, 2528, 7799".
biodb.DEBUG[2025-09-22 19:38:35.476][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
fscache.INFO [2025-09-22 19:38:35.477][cch$loadContents] Load 3 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-22 19:38:35.480][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGB.xml.
fscache.DEBUG[2025-09-22 19:38:35.484][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2528.xml.
fscache.DEBUG[2025-09-22 19:38:35.488][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7799.xml.
biodb.DEBUG[2025-09-22 19:38:35.490][conn$getEntryContent] 3 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-22 19:38:35.492][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2025-09-22 19:38:35.493][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2025-09-22 19:38:35.495][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:35.496][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:35.497][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:35.504][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:35.506][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:35.507][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:35.508][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:35.511][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:35.512][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:35.514][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.515][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.517][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:35.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:35.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.522][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 19:38:35.523][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 19:38:35.524][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.525][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.526][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 19:38:35.527][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 19:38:35.529][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.529][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.531][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 19:38:35.532][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 19:38:35.533][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.534][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.535][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 19:38:35.537][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 19:38:35.538][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.539][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.540][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-22 19:38:35.542][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-22 19:38:35.543][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.544][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.545][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 19:38:35.546][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:35.548][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.549][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.550][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:35.551][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:35.552][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.553][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.554][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-22 19:38:35.555][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 19:38:35.556][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.558][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.559][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 19:38:35.560][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 19:38:35.561][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.562][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.564][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 19:38:35.565][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 19:38:35.566][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.567][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.569][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:35.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:35.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.573][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:35.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:35.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.578][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:35.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:35.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.583][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:35.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:35.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.587][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:35.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:35.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.592][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:35.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:35.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.597][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:35.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:35.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:35.602][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:35.604][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:35.605][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:35.612][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:35.613][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:35.615][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:35.616][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:35.619][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:35.621][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:35.622][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.624][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.625][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:35.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:35.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.630][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 19:38:35.631][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 19:38:35.632][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.634][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.635][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 19:38:35.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 19:38:35.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.639][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 19:38:35.640][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 19:38:35.641][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.642][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.644][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 19:38:35.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 19:38:35.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.650][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 19:38:35.651][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 19:38:35.652][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.653][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.655][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 19:38:35.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 19:38:35.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.661][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 19:38:35.662][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 19:38:35.664][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.665][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.667][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 19:38:35.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 19:38:35.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.671][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-22 19:38:35.672][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-22 19:38:35.673][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.674][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.676][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-22 19:38:35.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-22 19:38:35.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.681][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 19:38:35.682][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:35.683][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.684][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.686][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 19:38:35.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:35.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.690][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:35.692][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:35.693][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.694][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.695][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:35.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:35.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.700][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-22 19:38:35.701][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 19:38:35.702][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.703][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.704][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-22 19:38:35.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 19:38:35.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.710][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 19:38:35.711][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 19:38:35.713][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.714][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.716][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 19:38:35.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 19:38:35.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.721][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 19:38:35.722][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 19:38:35.723][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.724][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.725][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 19:38:35.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 19:38:35.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.730][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:35.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:35.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.734][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:35.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:35.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.738][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:35.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:35.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.744][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:35.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:35.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.748][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:35.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:35.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.753][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:35.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:35.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.765][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:35.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:35.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:35.770][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:35.771][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:35.772][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:35.779][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:35.780][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:35.781][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:35.783][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 19:38:35.786][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:35.787][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:35.788][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.789][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.791][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:35.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:35.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.796][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 19:38:35.797][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 19:38:35.799][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.800][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.801][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 19:38:35.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 19:38:35.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.806][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 19:38:35.807][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 19:38:35.808][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.809][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.811][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 19:38:35.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 19:38:35.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.816][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 19:38:35.817][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 19:38:35.819][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.820][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.822][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 19:38:35.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 19:38:35.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.827][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 19:38:35.828][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 19:38:35.829][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.831][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.832][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 19:38:35.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 19:38:35.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.836][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-22 19:38:35.837][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-22 19:38:35.838][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.839][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.841][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-22 19:38:35.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-22 19:38:35.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.846][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 19:38:35.847][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:35.848][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.849][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.850][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 19:38:35.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:35.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.855][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:35.857][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:35.858][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.859][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.861][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:35.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:35.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.866][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-22 19:38:35.868][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 19:38:35.869][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.870][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.872][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-22 19:38:35.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 19:38:35.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.877][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 19:38:35.878][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 19:38:35.879][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.881][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.882][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 19:38:35.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 19:38:35.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.886][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 19:38:35.887][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 19:38:35.888][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.889][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.890][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 19:38:35.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 19:38:35.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.895][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:35.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:35.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.900][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:35.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:35.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.905][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:35.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:35.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.909][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:35.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:35.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.914][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:35.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:35.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.919][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:35.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:35.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.924][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:35.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:35.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.929][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:35.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:35.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.935][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:35.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:35.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.940][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:35.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:35.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.945][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:35.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:35.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.949][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:35.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:35.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.953][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:35.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:35.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.958][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:35.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:35.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.963][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:35.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:35.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:35.968][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:35.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:35.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:35.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:35.972][self$createEntryFromContent] Accession numbers: , 2528, 7799.
biodb.DEBUG[2025-09-22 19:38:35.973][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2025-09-22 19:38:35.974][function(conn, opt)] Entries: [4]: "NULL, <environment>, <environment>, <environment>"
biodb.INFO [2025-09-22 19:38:35.993][biodb::testThat]
biodb.INFO [2025-09-22 19:38:35.994][biodb::testThat] Running test function  test.peak.table  (" The peak table is correct. ").
biodb.INFO [2025-09-22 19:38:35.996][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-22 19:38:35.997][biodb::testThat]
biodb.INFO [2025-09-22 19:38:36.030][biodb::testThat]
biodb.INFO [2025-09-22 19:38:36.032][biodb::testThat] Running test function  test.nb.entries  (" Nb entries is positive. ").
biodb.INFO [2025-09-22 19:38:36.033][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-22 19:38:36.035][biodb::testThat]
biodb.INFO [2025-09-22 19:38:36.048][biodb::testThat]
biodb.INFO [2025-09-22 19:38:36.050][biodb::testThat] Running test function  test.entry.ids  (" We can get a list of entry ids. ").
biodb.INFO [2025-09-22 19:38:36.051][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-22 19:38:36.052][biodb::testThat]
sched.DEBUG[2025-09-22 19:38:36.056][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=1*&searchCategory=CHEBI ID&maximumResults=100&starsCategory=ALL".
fscache.INFO [2025-09-22 19:38:36.059][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-22 19:38:36.064][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/02ece1564def26723013d564c4071584.content.
sched.DEBUG[2025-09-22 19:38:36.066][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.TRACE[2025-09-22 19:38:36.081][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-22 19:38:36.082][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 19:38:36.084][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:36.085][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:36.086][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:36.087][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:36.088][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:36.090][ef$get] fields variable is a list.
biodb.INFO [2025-09-22 19:38:36.091][biodb::testThat]
biodb.INFO [2025-09-22 19:38:36.093][biodb::testThat] Running test function  test.annotateMzValues  (" annotateMzValues() works correctly. ").
biodb.INFO [2025-09-22 19:38:36.094][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-22 19:38:36.095][biodb::testThat]
biodb.ERROR[2025-09-22 19:38:36.115][conn$annotateMzValues] No column named "mz" was found inside data frame.
biodb.ERROR[2025-09-22 19:38:36.133][ef$checkIsDefined] Field(s) "foo" is/are not defined.
biodb.INFO [2025-09-22 19:38:36.149][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-09-22 19:38:36.160][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-09-22 19:38:36.162][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-09-22 19:38:36.164][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:36.165][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:36.166][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:36.167][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:36.168][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:36.169][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-09-22 19:38:36.182][biodb::testContext]
biodb.INFO [2025-09-22 19:38:36.184][biodb::testContext] ********************************************************************************
biodb.INFO [2025-09-22 19:38:36.185][biodb::testContext] Test context - Test conversions
biodb.INFO [2025-09-22 19:38:36.187][biodb::testContext] ********************************************************************************
biodb.INFO [2025-09-22 19:38:36.188][biodb::testContext]
biodb.INFO [2025-09-22 19:38:36.191][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.1.
biodb.DEBUG[2025-09-22 19:38:36.194][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-09-22 19:38:36.200][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-22 19:38:36.201][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-09-22 19:38:36.203][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-09-22 19:38:36.204][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:36.205][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:36.206][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:36.207][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-09-22 19:38:36.208][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-09-22 19:38:36.209][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:36.209][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:36.211][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:36.211][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-09-22 19:38:36.213][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-09-22 19:38:36.214][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:36.215][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:36.215][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:36.216][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-09-22 19:38:36.217][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-09-22 19:38:36.218][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-09-22 19:38:36.219][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:36.220][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:36.221][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:36.222][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-09-22 19:38:36.224][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-09-22 19:38:36.225][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-09-22 19:38:36.226][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:36.227][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:36.229][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:36.230][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-09-22 19:38:36.231][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-09-22 19:38:36.233][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:36.234][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:36.235][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:36.236][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-09-22 19:38:36.237][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-09-22 19:38:36.238][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-09-22 19:38:36.239][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:36.240][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:36.241][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:36.243][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-09-22 19:38:36.244][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-09-22 19:38:36.245][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:36.246][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:36.247][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:36.249][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-09-22 19:38:36.250][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-09-22 19:38:36.251][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-09-22 19:38:36.252][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:36.253][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:36.254][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:36.255][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-09-22 19:38:36.256][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-09-22 19:38:36.257][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-09-22 19:38:36.258][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-09-22 19:38:36.259][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-09-22 19:38:36.260][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-09-22 19:38:36.261][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:36.262][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:36.263][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:36.264][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-09-22 19:38:36.265][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-09-22 19:38:36.266][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:36.268][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:36.269][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:36.270][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-09-22 19:38:36.271][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-09-22 19:38:36.272][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:36.273][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:36.274][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:36.275][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-09-22 19:38:36.276][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-09-22 19:38:36.277][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:36.277][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:36.278][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:36.279][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-09-22 19:38:36.281][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-09-22 19:38:36.282][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-09-22 19:38:36.284][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:36.285][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:36.286][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:36.287][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-09-22 19:38:36.289][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-09-22 19:38:36.314][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-09-22 19:38:36.315][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:36.316][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:36.318][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:36.319][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-09-22 19:38:36.320][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-09-22 19:38:36.322][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-09-22 19:38:36.323][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:36.324][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:36.325][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:36.327][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-09-22 19:38:36.328][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-22 19:38:36.330][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-09-22 19:38:36.331][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-22 19:38:36.331][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-22 19:38:36.333][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-22 19:38:36.333][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-22 19:38:36.334][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-22 19:38:36.335][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-22 19:38:36.336][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-09-22 19:38:36.338][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-22 19:38:36.339][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-22 19:38:36.340][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-09-22 19:38:36.342][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-22 19:38:36.343][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-22 19:38:36.344][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-22 19:38:36.346][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-22 19:38:36.346][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-22 19:38:36.346][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-22 19:38:36.346][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-09-22 19:38:36.346][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-09-22 19:38:36.347][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-22 19:38:36.348][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-22 19:38:36.349][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-22 19:38:36.350][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-22 19:38:36.352][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-22 19:38:36.353][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-22 19:38:36.354][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-22 19:38:36.356][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-22 19:38:36.357][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-22 19:38:36.358][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-22 19:38:36.359][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-22 19:38:36.361][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-22 19:38:36.362][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-09-22 19:38:36.364][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-22 19:38:36.366][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-09-22 19:38:36.367][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-22 19:38:36.368][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-22 19:38:36.370][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-22 19:38:36.371][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-22 19:38:36.372][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-22 19:38:36.374][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-22 19:38:36.375][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-09-22 19:38:36.376][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-22 19:38:36.377][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-22 19:38:36.379][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-09-22 19:38:36.380][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-22 19:38:36.381][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-22 19:38:36.382][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-22 19:38:36.384][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-22 19:38:36.384][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-22 19:38:36.384][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-22 19:38:36.384][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-09-22 19:38:36.384][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-09-22 19:38:36.385][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-22 19:38:36.386][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-22 19:38:36.387][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-22 19:38:36.389][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-22 19:38:36.390][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-22 19:38:36.391][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-22 19:38:36.392][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-22 19:38:36.393][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-22 19:38:36.394][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-22 19:38:36.395][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-22 19:38:36.397][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-22 19:38:36.398][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-22 19:38:36.399][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-09-22 19:38:36.401][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-09-22 19:38:36.402][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-09-22 19:38:36.404][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-22 19:38:36.405][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-22 19:38:36.406][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-22 19:38:36.408][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-22 19:38:36.409][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-22 19:38:36.411][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-22 19:38:36.412][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-09-22 19:38:36.413][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-22 19:38:36.415][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-09-22 19:38:36.416][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-09-22 19:38:36.418][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-22 19:38:36.419][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-22 19:38:36.420][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-22 19:38:36.422][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-09-22 19:38:36.423][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-22 19:38:36.424][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-22 19:38:36.425][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-22 19:38:36.426][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-22 19:38:36.427][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-22 19:38:36.429][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-22 19:38:36.430][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-22 19:38:36.431][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-22 19:38:36.432][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-22 19:38:36.433][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-22 19:38:36.435][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-22 19:38:36.436][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-22 19:38:36.438][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-09-22 19:38:36.440][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-09-22 19:38:36.441][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-09-22 19:38:36.442][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-22 19:38:36.443][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-22 19:38:36.444][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-22 19:38:36.445][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-22 19:38:36.447][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-22 19:38:36.448][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-22 19:38:36.449][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-09-22 19:38:36.450][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-22 19:38:36.452][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-09-22 19:38:36.453][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-09-22 19:38:36.454][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-22 19:38:36.456][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-22 19:38:36.457][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-22 19:38:36.458][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-09-22 19:38:36.460][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-22 19:38:36.461][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-22 19:38:36.462][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-22 19:38:36.463][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-22 19:38:36.464][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-22 19:38:36.465][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-22 19:38:36.466][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-22 19:38:36.468][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-22 19:38:36.469][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-22 19:38:36.470][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-22 19:38:36.471][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-22 19:38:36.472][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-22 19:38:36.473][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-22 19:38:36.474][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:36.475][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:36.476][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:36.477][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:36.477][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:36.478][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:36.480][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:36.481][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:36.482][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:36.483][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:36.484][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:36.485][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[2025-09-22 19:38:36.486][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:36.487][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:36.488][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:36.489][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:36.491][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:36.492][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:36.493][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:36.494][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:36.495][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:36.496][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:36.497][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:36.499][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:36.500][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:36.501][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:36.502][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:36.503][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:36.504][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:36.506][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:36.507][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:36.508][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:36.509][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:36.510][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:36.512][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:36.513][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:36.514][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:36.515][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:36.516][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:36.517][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:36.518][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:36.519][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:36.520][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:36.522][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:36.523][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:36.524][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:36.525][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:36.526][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:36.527][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:36.528][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:36.529][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:36.530][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:36.531][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:36.532][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:36.533][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:36.534][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:36.535][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[2025-09-22 19:38:36.537][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:36.538][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:36.539][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:36.540][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:36.541][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:36.542][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:36.543][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:36.544][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:36.552][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:36.553][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:36.554][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:36.555][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:36.556][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:36.557][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:36.558][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:36.559][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:36.560][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:36.562][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:36.563][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:36.564][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:36.565][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:36.566][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:36.567][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:36.568][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:36.569][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:36.570][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-09-22 19:38:36.572][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-09-22 19:38:36.574][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-09-22 19:38:36.576][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-09-22 19:38:36.578][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-09-22 19:38:36.579][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-09-22 19:38:36.581][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-09-22 19:38:36.583][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-09-22 19:38:36.584][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-09-22 19:38:36.586][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-09-22 19:38:36.588][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-09-22 19:38:36.589][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-09-22 19:38:36.591][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-09-22 19:38:36.593][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-09-22 19:38:36.595][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-09-22 19:38:36.597][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-09-22 19:38:36.598][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-09-22 19:38:36.600][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-09-22 19:38:36.602][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-09-22 19:38:36.604][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-09-22 19:38:36.605][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-09-22 19:38:36.607][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-09-22 19:38:36.609][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-09-22 19:38:36.611][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-09-22 19:38:36.613][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-09-22 19:38:36.614][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-09-22 19:38:36.616][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-09-22 19:38:36.618][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-09-22 19:38:36.620][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-09-22 19:38:36.621][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-09-22 19:38:36.622][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-09-22 19:38:36.623][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-09-22 19:38:36.624][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-09-22 19:38:36.626][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-09-22 19:38:36.627][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-09-22 19:38:36.629][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-09-22 19:38:36.631][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-09-22 19:38:36.633][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-09-22 19:38:36.635][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-09-22 19:38:36.637][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-09-22 19:38:36.638][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-09-22 19:38:36.640][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-09-22 19:38:36.642][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-09-22 19:38:36.643][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-09-22 19:38:36.644][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-09-22 19:38:36.645][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-09-22 19:38:36.646][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-09-22 19:38:36.648][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-09-22 19:38:36.649][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-09-22 19:38:36.651][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-09-22 19:38:36.652][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-09-22 19:38:36.653][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-09-22 19:38:36.654][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-09-22 19:38:36.655][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-09-22 19:38:36.657][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-09-22 19:38:36.658][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-09-22 19:38:36.659][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-09-22 19:38:36.661][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-09-22 19:38:36.662][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-09-22 19:38:36.663][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-09-22 19:38:36.665][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-09-22 19:38:36.667][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-09-22 19:38:36.668][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-09-22 19:38:36.670][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-09-22 19:38:36.671][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-09-22 19:38:36.673][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-09-22 19:38:36.674][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-09-22 19:38:36.675][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-09-22 19:38:36.677][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-09-22 19:38:36.678][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-09-22 19:38:36.680][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-09-22 19:38:36.682][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-09-22 19:38:36.683][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-09-22 19:38:36.685][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-09-22 19:38:36.686][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-09-22 19:38:36.688][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-09-22 19:38:36.690][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-09-22 19:38:36.691][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-09-22 19:38:36.693][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-09-22 19:38:36.695][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-09-22 19:38:36.697][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-09-22 19:38:36.699][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-09-22 19:38:36.700][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-09-22 19:38:36.702][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-09-22 19:38:36.705][initialize] This is biodb version 1.17.1.
biodb.DEBUG[2025-09-22 19:38:36.706][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-22 19:38:36.707][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:36.708][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:36.709][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:36.710][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:36.712][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:36.713][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:36.714][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:36.715][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:36.716][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:36.717][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:36.718][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[2025-09-22 19:38:36.719][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:36.720][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:36.721][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:36.722][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:36.723][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:36.724][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:36.725][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:36.726][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:36.728][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:36.729][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:36.730][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:36.731][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:36.732][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:36.733][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:36.735][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:36.736][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:36.737][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:36.738][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:36.739][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:36.741][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:36.742][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[2025-09-22 19:38:36.743][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:36.744][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:36.745][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:36.746][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:36.747][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:36.749][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:36.750][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:36.751][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:36.752][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:36.753][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:36.755][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:36.756][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:36.757][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:36.759][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:36.760][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:36.761][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:36.762][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:36.763][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:36.764][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:36.765][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:36.766][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:36.767][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:36.768][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:36.769][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:36.770][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:36.771][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:36.773][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:36.774][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:36.775][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:36.776][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:36.778][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:36.779][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:36.780][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:36.781][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:36.782][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[2025-09-22 19:38:36.783][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:36.785][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:36.786][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:36.787][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:36.788][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:36.789][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:36.791][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:36.792][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:36.793][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:36.794][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:36.795][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:36.796][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:36.797][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:36.798][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:36.799][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:36.800][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:36.801][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:36.801][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:36.802][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:36.804][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:36.804][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[2025-09-22 19:38:36.805][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:36.806][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:36.807][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:36.808][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:36.809][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:36.810][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:36.811][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:36.813][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:36.813][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:36.814][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:36.815][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:36.817][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:36.818][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:36.819][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:36.820][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:36.822][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:36.823][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:36.824][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:36.825][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:36.826][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:36.827][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[2025-09-22 19:38:36.828][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:36.830][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:36.831][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:36.832][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:36.833][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:36.834][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:36.835][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:36.838][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-09-22 19:38:36.840][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-09-22 19:38:36.842][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-22 19:38:36.844][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-09-22 19:38:36.845][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-22 19:38:36.847][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-22 19:38:36.848][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-22 19:38:36.849][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-22 19:38:36.850][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-09-22 19:38:36.852][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-09-22 19:38:36.853][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-09-22 19:38:36.854][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-22 19:38:36.856][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-22 19:38:36.857][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-09-22 19:38:36.858][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-22 19:38:36.860][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-09-22 19:38:36.860][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-09-22 19:38:36.860][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-09-22 19:38:36.860][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-09-22 19:38:36.860][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-09-22 19:38:36.860][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-09-22 19:38:36.860][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-09-22 19:38:36.860][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-09-22 19:38:36.860][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-09-22 19:38:36.860][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-09-22 19:38:36.860][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-09-22 19:38:36.861][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-09-22 19:38:36.862][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-22 19:38:36.862][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-22 19:38:36.862][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-22 19:38:36.863][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-09-22 19:38:36.865][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-22 19:38:36.866][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-22 19:38:36.867][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-22 19:38:36.869][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-22 19:38:36.869][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-22 19:38:36.871][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-22 19:38:36.872][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-09-22 19:38:36.872][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-09-22 19:38:36.873][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-22 19:38:36.875][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-22 19:38:36.876][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-09-22 19:38:36.877][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-09-22 19:38:36.877][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-09-22 19:38:36.879][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-09-22 19:38:36.881][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-09-22 19:38:36.883][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-09-22 19:38:36.885][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-09-22 19:38:36.887][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-09-22 19:38:36.889][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-09-22 19:38:36.893][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-09-22 19:38:36.898][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-09-22 19:38:36.900][biodb::testThat]
biodb.INFO [2025-09-22 19:38:36.902][biodb::testThat] Running test function  test_chebi_convCasToChebi  (" convCasToChebi() works. ").
biodb.INFO [2025-09-22 19:38:36.903][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-22 19:38:36.913][biodb::testThat]
sched.DEBUG[2025-09-22 19:38:36.917][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-09-22 19:38:36.919][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-22 19:38:36.925][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-09-22 19:38:36.927][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-09-22 19:38:36.932][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 [2025-09-22 19:38:36.936][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-22 19:38:36.948][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-09-22 19:38:36.950][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-22 19:38:36.952][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:36.954][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:36.955][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:36.961][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:36.963][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:36.963][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:36.964][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-09-22 19:38:36.966][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 [2025-09-22 19:38:36.969][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-22 19:38:36.972][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-09-22 19:38:36.973][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-22 19:38:36.975][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:36.975][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:36.976][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:36.982][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:36.984][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:36.985][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:36.986][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:37.009][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:37.011][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:37.012][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:37.018][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:37.019][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:37.020][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:37.022][FUN] Functions in observer 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[2025-09-22 19:38:37.028][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 [2025-09-22 19:38:37.031][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-22 19:38:37.033][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-09-22 19:38:37.034][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-22 19:38:37.037][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:37.038][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:37.039][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:37.046][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:37.047][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:37.048][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:37.049][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-09-22 19:38:37.052][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 [2025-09-22 19:38:37.055][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-22 19:38:37.058][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-09-22 19:38:37.059][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-22 19:38:37.062][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:37.063][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:37.064][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:37.070][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:37.072][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:37.072][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:37.073][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:37.075][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:37.076][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:37.077][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:37.084][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:37.086][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:37.087][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:37.088][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-09-22 19:38:37.094][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 [2025-09-22 19:38:37.097][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-22 19:38:37.100][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-09-22 19:38:37.101][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-22 19:38:37.104][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:37.105][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:37.106][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:37.112][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:37.113][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:37.115][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:37.116][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-09-22 19:38:37.118][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 [2025-09-22 19:38:37.121][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-22 19:38:37.124][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-09-22 19:38:37.125][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-22 19:38:37.127][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:37.128][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:37.130][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:37.136][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:37.138][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:37.139][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:37.140][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-09-22 19:38:37.142][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 [2025-09-22 19:38:37.146][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-22 19:38:37.149][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/d853ab8a48594978d76c30b86726648a.content.
sched.DEBUG[2025-09-22 19:38:37.150][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-22 19:38:37.152][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:37.153][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:37.154][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:37.161][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:37.162][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:37.163][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:37.164][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-09-22 19:38:37.174][biodb::testThat]
biodb.INFO [2025-09-22 19:38:37.175][biodb::testThat] Running test function  test_chebi_convInchiToChebi  (" convInchiToChebi() works. ").
biodb.INFO [2025-09-22 19:38:37.177][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-22 19:38:37.178][biodb::testThat]
sched.DEBUG[2025-09-22 19:38:37.182][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 [2025-09-22 19:38:37.185][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-22 19:38:37.187][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/aa56e28005d49da17591454624aabcd2.content.
sched.DEBUG[2025-09-22 19:38:37.189][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-22 19:38:37.190][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:37.191][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:37.192][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:37.199][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:37.200][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:37.201][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:37.203][FUN] Functions in observer 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[2025-09-22 19:38:37.208][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 [2025-09-22 19:38:37.211][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-22 19:38:37.222][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/c62078a064e3122e21e26c3428179396.content.
sched.DEBUG[2025-09-22 19:38:37.224][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-22 19:38:37.226][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:37.228][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:37.229][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:37.235][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:37.255][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:37.257][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:37.258][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-09-22 19:38:37.268][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-09-22 19:38:37.269][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-09-22 19:38:37.271][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-09-22 19:38:37.273][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:37.275][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:37.278][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:37.281][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:37.283][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:37.284][FUN] Functions in observer BiodbConfig: [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 [2025-09-22 19:38:37.288][biodb::testContext]
biodb.INFO [2025-09-22 19:38:37.289][biodb::testContext] ********************************************************************************
biodb.INFO [2025-09-22 19:38:37.290][biodb::testContext] Test context - Test web services
biodb.INFO [2025-09-22 19:38:37.292][biodb::testContext] ********************************************************************************
biodb.INFO [2025-09-22 19:38:37.293][biodb::testContext]
biodb.INFO [2025-09-22 19:38:37.296][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.1.
biodb.DEBUG[2025-09-22 19:38:37.298][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-09-22 19:38:37.303][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-22 19:38:37.305][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-09-22 19:38:37.306][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-09-22 19:38:37.307][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:37.309][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:37.310][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:37.311][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-09-22 19:38:37.313][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-09-22 19:38:37.314][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:37.315][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:37.316][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:37.317][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-09-22 19:38:37.319][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-09-22 19:38:37.320][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:37.321][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:37.322][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:37.324][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-09-22 19:38:37.325][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-09-22 19:38:37.326][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-09-22 19:38:37.328][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:37.329][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:37.330][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:37.331][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-09-22 19:38:37.332][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-09-22 19:38:37.333][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-09-22 19:38:37.334][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:37.336][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:37.337][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:37.338][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-09-22 19:38:37.340][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-09-22 19:38:37.341][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:37.342][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:37.343][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[2025-09-22 19:38:37.344][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-09-22 19:38:37.345][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-09-22 19:38:37.347][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-09-22 19:38:37.347][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:37.348][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:37.349][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:37.351][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-09-22 19:38:37.352][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-09-22 19:38:37.353][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:37.354][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:37.355][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:37.357][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-09-22 19:38:37.358][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-09-22 19:38:37.359][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-09-22 19:38:37.360][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:37.362][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:37.363][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:37.364][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-09-22 19:38:37.365][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-09-22 19:38:37.366][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-09-22 19:38:37.367][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-09-22 19:38:37.368][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-09-22 19:38:37.370][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-09-22 19:38:37.371][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:37.372][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:37.373][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[2025-09-22 19:38:37.374][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-09-22 19:38:37.376][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-09-22 19:38:37.377][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:37.378][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:37.379][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:37.380][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-09-22 19:38:37.381][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-09-22 19:38:37.382][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:37.383][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:37.384][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:37.385][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-09-22 19:38:37.386][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-09-22 19:38:37.387][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:37.388][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:37.389][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:37.390][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-09-22 19:38:37.391][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-09-22 19:38:37.392][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-09-22 19:38:37.393][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:37.394][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:37.395][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:37.396][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-09-22 19:38:37.396][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-09-22 19:38:37.419][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-09-22 19:38:37.421][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:37.423][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:37.424][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:37.425][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-09-22 19:38:37.427][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-09-22 19:38:37.428][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-09-22 19:38:37.430][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:37.430][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:37.432][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[2025-09-22 19:38:37.433][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-09-22 19:38:37.435][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-22 19:38:37.436][self$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[2025-09-22 19:38:37.437][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-22 19:38:37.438][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-22 19:38:37.439][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-22 19:38:37.440][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-22 19:38:37.442][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-22 19:38:37.443][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-22 19:38:37.444][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-09-22 19:38:37.445][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-22 19:38:37.447][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-22 19:38:37.447][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-09-22 19:38:37.449][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-22 19:38:37.450][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-22 19:38:37.451][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-22 19:38:37.452][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-22 19:38:37.452][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-22 19:38:37.452][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-22 19:38:37.452][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-09-22 19:38:37.452][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-09-22 19:38:37.453][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-22 19:38:37.454][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-22 19:38:37.456][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-22 19:38:37.457][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-22 19:38:37.458][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-22 19:38:37.460][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-22 19:38:37.461][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-22 19:38:37.462][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-22 19:38:37.463][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-22 19:38:37.464][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-22 19:38:37.465][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-22 19:38:37.467][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-22 19:38:37.468][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-09-22 19:38:37.471][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-22 19:38:37.472][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-09-22 19:38:37.474][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-22 19:38:37.475][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-22 19:38:37.476][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-22 19:38:37.477][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-22 19:38:37.479][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-22 19:38:37.480][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-22 19:38:37.481][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-09-22 19:38:37.483][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-22 19:38:37.484][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-22 19:38:37.485][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-09-22 19:38:37.487][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-22 19:38:37.487][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-22 19:38:37.489][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-22 19:38:37.490][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-22 19:38:37.490][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-22 19:38:37.490][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-22 19:38:37.490][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-09-22 19:38:37.490][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-09-22 19:38:37.491][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-22 19:38:37.493][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-22 19:38:37.494][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-22 19:38:37.495][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-22 19:38:37.497][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-22 19:38:37.498][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-22 19:38:37.499][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-22 19:38:37.500][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-22 19:38:37.501][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-22 19:38:37.503][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-22 19:38:37.504][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-22 19:38:37.505][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-22 19:38:37.507][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-09-22 19:38:37.509][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-09-22 19:38:37.510][self$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[2025-09-22 19:38:37.511][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-22 19:38:37.513][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-22 19:38:37.514][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-22 19:38:37.515][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-22 19:38:37.516][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-22 19:38:37.517][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-22 19:38:37.518][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-09-22 19:38:37.520][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-22 19:38:37.521][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-09-22 19:38:37.522][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-09-22 19:38:37.523][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-22 19:38:37.524][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-22 19:38:37.525][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-22 19:38:37.526][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-09-22 19:38:37.527][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-22 19:38:37.528][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-22 19:38:37.529][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-22 19:38:37.530][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-22 19:38:37.532][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-22 19:38:37.533][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-22 19:38:37.534][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-22 19:38:37.535][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-22 19:38:37.536][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-22 19:38:37.538][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-22 19:38:37.539][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-22 19:38:37.540][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-22 19:38:37.542][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-09-22 19:38:37.545][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-09-22 19:38:37.546][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-09-22 19:38:37.547][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-22 19:38:37.548][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-22 19:38:37.550][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-22 19:38:37.551][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-22 19:38:37.552][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-22 19:38:37.554][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-22 19:38:37.555][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-09-22 19:38:37.556][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-22 19:38:37.557][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-09-22 19:38:37.559][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-09-22 19:38:37.560][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-22 19:38:37.561][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-22 19:38:37.562][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-22 19:38:37.563][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-09-22 19:38:37.564][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-22 19:38:37.566][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-22 19:38:37.567][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-22 19:38:37.568][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-22 19:38:37.569][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-22 19:38:37.571][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-22 19:38:37.572][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-22 19:38:37.573][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-22 19:38:37.575][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-22 19:38:37.575][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-22 19:38:37.577][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-22 19:38:37.578][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-22 19:38:37.579][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-22 19:38:37.580][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:37.581][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:37.582][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:37.583][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:37.584][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:37.585][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:37.586][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[2025-09-22 19:38:37.587][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:37.588][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:37.589][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:37.590][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:37.591][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[2025-09-22 19:38:37.592][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:37.594][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:37.595][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:37.596][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:37.597][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[2025-09-22 19:38:37.598][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:37.599][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:37.599][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:37.600][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:37.601][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:37.603][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:37.604][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:37.605][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:37.605][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:37.606][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:37.608][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:37.609][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:37.610][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:37.611][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:37.612][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[2025-09-22 19:38:37.613][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:37.614][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:37.615][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:37.616][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:37.617][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:37.618][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:37.619][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:37.620][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:37.621][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:37.622][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:37.623][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:37.624][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:37.625][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:37.626][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:37.627][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[2025-09-22 19:38:37.628][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:37.630][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:37.631][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:37.632][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:37.640][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:37.642][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:37.643][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:37.644][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:37.646][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:37.647][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:37.648][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:37.648][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:37.650][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:37.651][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:37.652][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[2025-09-22 19:38:37.653][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:37.655][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:37.656][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:37.657][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:37.657][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:37.658][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:37.659][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:37.660][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:37.661][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:37.662][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[2025-09-22 19:38:37.663][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:37.665][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:37.666][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:37.667][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:37.668][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[2025-09-22 19:38:37.669][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:37.671][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:37.672][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:37.672][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:37.673][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.DEBUG[2025-09-22 19:38:37.675][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-09-22 19:38:37.676][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-09-22 19:38:37.678][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-09-22 19:38:37.680][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-09-22 19:38:37.682][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-09-22 19:38:37.684][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-09-22 19:38:37.686][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-09-22 19:38:37.687][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-09-22 19:38:37.689][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-09-22 19:38:37.691][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-09-22 19:38:37.693][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-09-22 19:38:37.695][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-09-22 19:38:37.697][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-09-22 19:38:37.699][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-09-22 19:38:37.700][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-09-22 19:38:37.702][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-09-22 19:38:37.704][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-09-22 19:38:37.705][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-09-22 19:38:37.707][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-09-22 19:38:37.709][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-09-22 19:38:37.711][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-09-22 19:38:37.712][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-09-22 19:38:37.714][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-09-22 19:38:37.715][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-09-22 19:38:37.717][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-09-22 19:38:37.719][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-09-22 19:38:37.721][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-09-22 19:38:37.723][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-09-22 19:38:37.725][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-09-22 19:38:37.727][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-09-22 19:38:37.729][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-09-22 19:38:37.731][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-09-22 19:38:37.733][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-09-22 19:38:37.735][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-09-22 19:38:37.736][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-09-22 19:38:37.738][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-09-22 19:38:37.740][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-09-22 19:38:37.741][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-09-22 19:38:37.743][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-09-22 19:38:37.744][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-09-22 19:38:37.745][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-09-22 19:38:37.747][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-09-22 19:38:37.749][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-09-22 19:38:37.751][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-09-22 19:38:37.753][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-09-22 19:38:37.755][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-09-22 19:38:37.756][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-09-22 19:38:37.758][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-09-22 19:38:37.760][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-09-22 19:38:37.762][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-09-22 19:38:37.763][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-09-22 19:38:37.765][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-09-22 19:38:37.766][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-09-22 19:38:37.768][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-09-22 19:38:37.770][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-09-22 19:38:37.771][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-09-22 19:38:37.772][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-09-22 19:38:37.773][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-09-22 19:38:37.775][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-09-22 19:38:37.776][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-09-22 19:38:37.778][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-09-22 19:38:37.779][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-09-22 19:38:37.781][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-09-22 19:38:37.782][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-09-22 19:38:37.783][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-09-22 19:38:37.785][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-09-22 19:38:37.786][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-09-22 19:38:37.788][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-09-22 19:38:37.790][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-09-22 19:38:37.792][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-09-22 19:38:37.793][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-09-22 19:38:37.795][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-09-22 19:38:37.797][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-09-22 19:38:37.799][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-09-22 19:38:37.801][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-09-22 19:38:37.802][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-09-22 19:38:37.804][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-09-22 19:38:37.805][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-09-22 19:38:37.807][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-09-22 19:38:37.809][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-09-22 19:38:37.811][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-09-22 19:38:37.813][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-09-22 19:38:37.814][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-09-22 19:38:37.816][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-09-22 19:38:37.818][initialize] This is biodb version 1.17.1.
biodb.DEBUG[2025-09-22 19:38:37.819][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-22 19:38:37.821][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:37.822][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:37.823][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:37.824][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:37.825][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:37.826][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:37.827][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:37.828][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:37.829][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:37.830][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:37.831][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:37.832][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:37.833][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:37.834][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:37.836][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:37.837][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:37.838][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:37.839][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:37.840][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:37.841][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:37.843][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:37.844][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:37.845][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:37.846][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:37.847][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.DEBUG[2025-09-22 19:38:37.848][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:37.850][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:37.851][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:37.852][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:37.853][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:37.854][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:37.855][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:37.856][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:37.857][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:37.858][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:37.860][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:37.861][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:37.862][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:37.863][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:37.865][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:37.866][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:37.867][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:37.868][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:37.870][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:37.871][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:37.872][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:37.873][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:37.875][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:37.876][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:37.877][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:37.877][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:37.879][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:37.879][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[2025-09-22 19:38:37.881][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:37.882][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:37.883][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:37.884][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:37.885][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:37.887][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:37.888][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:37.889][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:37.890][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:37.891][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:37.892][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:37.893][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:37.894][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:37.896][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[2025-09-22 19:38:37.896][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:37.897][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:37.898][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:37.899][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:37.900][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:37.901][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:37.903][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:37.904][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:37.905][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:37.906][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:37.907][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:37.909][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:37.910][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:37.911][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:37.912][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:37.913][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:37.914][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:37.915][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:37.916][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:37.917][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:37.918][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[2025-09-22 19:38:37.920][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:37.921][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:37.922][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:37.923][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:37.924][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:37.926][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:37.927][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:37.928][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:37.929][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:37.930][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:37.932][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:37.933][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:37.934][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:37.935][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:37.936][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:37.937][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:37.938][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:37.939][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:37.940][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:37.941][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:37.942][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[2025-09-22 19:38:37.943][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:37.944][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:37.945][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:37.946][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:37.947][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:37.948][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:37.950][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:37.952][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-09-22 19:38:37.953][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-09-22 19:38:37.955][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-22 19:38:37.957][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-09-22 19:38:37.958][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-22 19:38:37.959][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-22 19:38:37.960][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-22 19:38:37.961][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-22 19:38:37.963][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-09-22 19:38:37.964][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-09-22 19:38:37.965][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-09-22 19:38:37.966][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-22 19:38:37.967][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-22 19:38:37.968][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-09-22 19:38:37.970][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-22 19:38:37.971][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-09-22 19:38:37.971][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-09-22 19:38:37.971][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-09-22 19:38:37.971][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-09-22 19:38:37.971][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-09-22 19:38:37.971][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-09-22 19:38:37.971][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-09-22 19:38:37.971][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-09-22 19:38:37.971][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-09-22 19:38:37.971][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-09-22 19:38:37.971][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-09-22 19:38:37.973][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-09-22 19:38:37.974][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-22 19:38:37.974][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-22 19:38:37.974][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-22 19:38:37.975][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-09-22 19:38:37.976][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-22 19:38:37.978][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-22 19:38:37.979][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-22 19:38:37.980][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-22 19:38:37.982][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-22 19:38:37.983][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-22 19:38:37.984][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-09-22 19:38:37.984][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-09-22 19:38:37.986][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-22 19:38:37.987][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-22 19:38:37.988][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-09-22 19:38:37.990][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-09-22 19:38:37.990][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-09-22 19:38:37.991][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-09-22 19:38:38.000][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-09-22 19:38:38.002][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-09-22 19:38:38.005][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-09-22 19:38:38.007][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-09-22 19:38:38.009][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-09-22 19:38:38.013][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-09-22 19:38:38.019][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-09-22 19:38:38.021][biodb::testThat]
biodb.INFO [2025-09-22 19:38:38.022][biodb::testThat] Running test function  test.chebi.wsGetLiteEntity  (" Web service getLiteEntity works fine. ").
biodb.INFO [2025-09-22 19:38:38.024][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-22 19:38:38.025][biodb::testThat]
sched.DEBUG[2025-09-22 19:38:38.028][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-09-22 19:38:38.031][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-22 19:38:38.036][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-09-22 19:38:38.038][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-09-22 19:38:38.042][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI ID&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-09-22 19:38:38.045][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-22 19:38:38.048][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/45b8073beb9f4a9f751edf98e80ca9dd.content.
sched.DEBUG[2025-09-22 19:38:38.049][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.INFO [2025-09-22 19:38:38.060][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-09-22 19:38:38.062][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-09-22 19:38:38.063][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-09-22 19:38:38.064][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:38.065][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:38.066][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:38.067][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:38.068][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:38.069][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-09-22 19:38:38.073][biodb::testContext]
biodb.INFO [2025-09-22 19:38:38.075][biodb::testContext] ********************************************************************************
biodb.INFO [2025-09-22 19:38:38.076][biodb::testContext] Test context - Non regression tests
biodb.INFO [2025-09-22 19:38:38.077][biodb::testContext] ********************************************************************************
biodb.INFO [2025-09-22 19:38:38.078][biodb::testContext]
biodb.INFO [2025-09-22 19:38:38.080][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.1.
biodb.DEBUG[2025-09-22 19:38:38.083][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-09-22 19:38:38.088][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-22 19:38:38.090][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-09-22 19:38:38.091][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-09-22 19:38:38.092][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:38.094][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:38.095][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:38.096][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-09-22 19:38:38.097][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-09-22 19:38:38.098][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:38.099][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:38.100][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:38.101][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-09-22 19:38:38.103][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-09-22 19:38:38.104][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:38.105][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:38.106][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:38.107][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-09-22 19:38:38.108][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-09-22 19:38:38.110][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-09-22 19:38:38.111][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:38.112][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:38.113][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:38.114][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-09-22 19:38:38.115][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-09-22 19:38:38.117][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-09-22 19:38:38.118][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:38.119][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:38.120][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:38.122][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-09-22 19:38:38.123][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-09-22 19:38:38.124][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:38.125][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:38.126][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:38.128][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-09-22 19:38:38.129][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-09-22 19:38:38.130][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-09-22 19:38:38.131][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:38.132][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:38.134][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:38.135][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-09-22 19:38:38.136][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-09-22 19:38:38.137][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:38.137][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:38.138][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:38.140][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-09-22 19:38:38.141][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-09-22 19:38:38.142][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-09-22 19:38:38.143][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:38.144][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:38.145][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[2025-09-22 19:38:38.146][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-09-22 19:38:38.147][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-09-22 19:38:38.148][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-09-22 19:38:38.150][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-09-22 19:38:38.151][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-09-22 19:38:38.152][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-09-22 19:38:38.153][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:38.154][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:38.155][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:38.156][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-09-22 19:38:38.158][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-09-22 19:38:38.159][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:38.160][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:38.161][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[2025-09-22 19:38:38.163][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-09-22 19:38:38.164][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-09-22 19:38:38.165][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:38.166][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:38.167][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:38.168][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-09-22 19:38:38.170][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-09-22 19:38:38.171][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:38.172][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:38.173][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:38.174][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-09-22 19:38:38.175][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-09-22 19:38:38.176][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-09-22 19:38:38.177][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:38.178][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:38.179][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:38.180][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-09-22 19:38:38.182][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-09-22 19:38:38.222][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-09-22 19:38:38.236][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:38.237][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:38.239][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:38.240][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-09-22 19:38:38.242][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-09-22 19:38:38.243][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-09-22 19:38:38.245][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:38.246][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:38.247][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:38.248][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-09-22 19:38:38.250][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-22 19:38:38.251][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-09-22 19:38:38.252][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-22 19:38:38.254][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-22 19:38:38.255][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-22 19:38:38.256][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-22 19:38:38.256][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-22 19:38:38.257][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-22 19:38:38.258][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-09-22 19:38:38.260][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-22 19:38:38.261][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-22 19:38:38.262][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-09-22 19:38:38.263][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-22 19:38:38.264][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-22 19:38:38.265][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-22 19:38:38.267][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-22 19:38:38.267][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-22 19:38:38.267][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-22 19:38:38.267][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-09-22 19:38:38.267][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-09-22 19:38:38.269][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-22 19:38:38.272][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-22 19:38:38.277][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-22 19:38:38.279][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-22 19:38:38.280][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-22 19:38:38.281][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-22 19:38:38.282][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-22 19:38:38.284][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-22 19:38:38.285][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-22 19:38:38.286][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-22 19:38:38.288][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-22 19:38:38.289][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-22 19:38:38.291][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-09-22 19:38:38.293][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-22 19:38:38.294][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-09-22 19:38:38.296][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-22 19:38:38.297][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-22 19:38:38.298][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-22 19:38:38.299][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-22 19:38:38.300][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-22 19:38:38.302][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-22 19:38:38.303][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-09-22 19:38:38.304][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-22 19:38:38.306][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-22 19:38:38.307][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-09-22 19:38:38.308][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-22 19:38:38.310][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-22 19:38:38.311][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-22 19:38:38.312][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-22 19:38:38.312][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-22 19:38:38.312][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-22 19:38:38.312][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-09-22 19:38:38.312][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-09-22 19:38:38.314][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-22 19:38:38.315][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-22 19:38:38.317][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-22 19:38:38.318][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-22 19:38:38.319][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-22 19:38:38.320][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-22 19:38:38.321][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-22 19:38:38.323][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-22 19:38:38.324][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-22 19:38:38.325][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-22 19:38:38.327][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-22 19:38:38.328][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-22 19:38:38.329][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-09-22 19:38:38.331][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-09-22 19:38:38.333][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-09-22 19:38:38.334][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-22 19:38:38.335][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-22 19:38:38.337][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-22 19:38:38.338][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-22 19:38:38.339][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-22 19:38:38.340][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-22 19:38:38.341][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-09-22 19:38:38.342][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-22 19:38:38.344][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-09-22 19:38:38.345][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-09-22 19:38:38.346][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-22 19:38:38.347][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-22 19:38:38.348][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-22 19:38:38.349][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-09-22 19:38:38.350][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-22 19:38:38.351][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-22 19:38:38.352][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-22 19:38:38.354][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-22 19:38:38.355][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-22 19:38:38.356][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-22 19:38:38.357][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-22 19:38:38.358][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-22 19:38:38.359][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-22 19:38:38.361][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-22 19:38:38.362][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-22 19:38:38.363][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-22 19:38:38.364][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-09-22 19:38:38.367][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-09-22 19:38:38.368][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-09-22 19:38:38.369][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-22 19:38:38.371][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-22 19:38:38.372][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-22 19:38:38.373][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-22 19:38:38.375][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-22 19:38:38.376][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-22 19:38:38.377][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-09-22 19:38:38.378][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-22 19:38:38.379][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-09-22 19:38:38.380][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-09-22 19:38:38.381][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-22 19:38:38.383][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-22 19:38:38.384][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-22 19:38:38.385][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-09-22 19:38:38.387][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-22 19:38:38.387][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-22 19:38:38.388][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-22 19:38:38.390][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-22 19:38:38.391][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-22 19:38:38.393][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-22 19:38:38.393][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-22 19:38:38.395][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-22 19:38:38.396][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-22 19:38:38.397][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-22 19:38:38.398][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-22 19:38:38.399][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-22 19:38:38.401][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-22 19:38:38.402][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:38.403][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.DEBUG[2025-09-22 19:38:38.404][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:38.405][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:38.406][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:38.407][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:38.408][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:38.409][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:38.410][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:38.411][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:38.412][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:38.413][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[2025-09-22 19:38:38.414][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:38.415][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:38.416][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:38.418][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:38.419][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[2025-09-22 19:38:38.420][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:38.421][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:38.422][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:38.424][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:38.425][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:38.426][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:38.427][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:38.428][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:38.429][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:38.439][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[2025-09-22 19:38:38.440][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:38.441][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:38.442][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:38.442][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:38.444][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:38.444][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:38.445][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:38.446][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:38.448][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:38.449][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[2025-09-22 19:38:38.450][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:38.451][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:38.451][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:38.453][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:38.454][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:38.455][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:38.456][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:38.458][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:38.459][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:38.460][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:38.461][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:38.462][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:38.463][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:38.464][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:38.466][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:38.467][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:38.468][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:38.469][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:38.471][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:38.472][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:38.473][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:38.474][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:38.474][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:38.476][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:38.477][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[2025-09-22 19:38:38.478][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:38.479][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:38.480][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:38.481][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:38.482][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:38.483][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:38.484][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:38.485][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:38.487][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:38.488][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.DEBUG[2025-09-22 19:38:38.489][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:38.490][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:38.491][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:38.492][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:38.494][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:38.495][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:38.496][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:38.497][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:38.498][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:38.499][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:38.500][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-09-22 19:38:38.502][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-09-22 19:38:38.504][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-09-22 19:38:38.506][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-09-22 19:38:38.508][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-09-22 19:38:38.510][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-09-22 19:38:38.512][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-09-22 19:38:38.513][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-09-22 19:38:38.515][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-09-22 19:38:38.517][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-09-22 19:38:38.519][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-09-22 19:38:38.520][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-09-22 19:38:38.522][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-09-22 19:38:38.524][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-09-22 19:38:38.526][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-09-22 19:38:38.528][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-09-22 19:38:38.530][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-09-22 19:38:38.531][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-09-22 19:38:38.533][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-09-22 19:38:38.535][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-09-22 19:38:38.537][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-09-22 19:38:38.538][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-09-22 19:38:38.540][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-09-22 19:38:38.542][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-09-22 19:38:38.544][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-09-22 19:38:38.545][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-09-22 19:38:38.547][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-09-22 19:38:38.548][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-09-22 19:38:38.550][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-09-22 19:38:38.552][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-09-22 19:38:38.554][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-09-22 19:38:38.556][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-09-22 19:38:38.558][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-09-22 19:38:38.559][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-09-22 19:38:38.561][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-09-22 19:38:38.563][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-09-22 19:38:38.565][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-09-22 19:38:38.567][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-09-22 19:38:38.569][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-09-22 19:38:38.571][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-09-22 19:38:38.572][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-09-22 19:38:38.574][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-09-22 19:38:38.576][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-09-22 19:38:38.578][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-09-22 19:38:38.579][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-09-22 19:38:38.581][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-09-22 19:38:38.583][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-09-22 19:38:38.584][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-09-22 19:38:38.586][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-09-22 19:38:38.588][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-09-22 19:38:38.590][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-09-22 19:38:38.592][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-09-22 19:38:38.593][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-09-22 19:38:38.595][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-09-22 19:38:38.597][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-09-22 19:38:38.598][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-09-22 19:38:38.600][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-09-22 19:38:38.601][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-09-22 19:38:38.604][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-09-22 19:38:38.606][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-09-22 19:38:38.608][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-09-22 19:38:38.609][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-09-22 19:38:38.611][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-09-22 19:38:38.613][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-09-22 19:38:38.615][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-09-22 19:38:38.616][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-09-22 19:38:38.618][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-09-22 19:38:38.620][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-09-22 19:38:38.622][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-09-22 19:38:38.623][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-09-22 19:38:38.625][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-09-22 19:38:38.626][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-09-22 19:38:38.628][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-09-22 19:38:38.630][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-09-22 19:38:38.631][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-09-22 19:38:38.633][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-09-22 19:38:38.634][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-09-22 19:38:38.635][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-09-22 19:38:38.637][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-09-22 19:38:38.639][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-09-22 19:38:38.640][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-09-22 19:38:38.641][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-09-22 19:38:38.643][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-09-22 19:38:38.645][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-09-22 19:38:38.647][initialize] This is biodb version 1.17.1.
biodb.DEBUG[2025-09-22 19:38:38.648][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-22 19:38:38.649][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:38.650][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:38.651][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:38.653][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[2025-09-22 19:38:38.654][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:38.655][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:38.655][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:38.656][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:38.657][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:38.658][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:38.659][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[2025-09-22 19:38:38.661][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:38.662][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:38.662][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:38.664][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:38.665][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:38.666][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:38.667][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:38.668][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:38.669][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:38.670][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:38.672][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:38.673][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:38.674][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:38.675][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:38.676][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:38.677][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:38.678][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:38.679][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:38.680][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:38.681][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:38.682][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:38.683][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:38.684][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:38.684][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:38.685][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:38.686][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:38.687][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:38.688][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[2025-09-22 19:38:38.689][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:38.690][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:38.691][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:38.692][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:38.694][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:38.695][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:38.696][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.DEBUG[2025-09-22 19:38:38.697][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:38.698][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:38.699][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:38.700][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:38.702][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:38.703][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:38.704][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:38.705][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:38.706][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:38.708][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:38.709][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:38.710][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:38.711][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:38.712][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[2025-09-22 19:38:38.713][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:38.715][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:38.716][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:38.717][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:38.718][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:38.720][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:38.721][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:38.722][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:38.723][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:38.724][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:38.725][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:38.726][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:38.728][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:38.729][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:38.730][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:38.731][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:38.732][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:38.733][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:38.735][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:38.735][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:38.736][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:38.737][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:38.738][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:38.739][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:38.741][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:38.741][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:38.743][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:38.744][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:38.745][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:38.746][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:38.747][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:38.748][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:38.749][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:38.750][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:38.751][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[2025-09-22 19:38:38.752][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:38.753][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:38.754][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:38.755][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:38.756][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:38.757][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:38.758][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[2025-09-22 19:38:38.759][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:38.760][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:38.761][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:38.762][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:38.763][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:38.764][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:38.765][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:38.766][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 19:38:38.768][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:38.769][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:38.770][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:38.771][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:38.772][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:38.774][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 19:38:38.776][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-09-22 19:38:38.778][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-09-22 19:38:38.781][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-22 19:38:38.782][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-09-22 19:38:38.783][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-22 19:38:38.792][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-22 19:38:38.793][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-22 19:38:38.795][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-22 19:38:38.796][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-09-22 19:38:38.798][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-09-22 19:38:38.799][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-09-22 19:38:38.800][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-22 19:38:38.802][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-22 19:38:38.803][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-09-22 19:38:38.804][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-22 19:38:38.805][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-09-22 19:38:38.805][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-09-22 19:38:38.805][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-09-22 19:38:38.805][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-09-22 19:38:38.805][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-09-22 19:38:38.805][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-09-22 19:38:38.805][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-09-22 19:38:38.805][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-09-22 19:38:38.805][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-09-22 19:38:38.805][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-09-22 19:38:38.805][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-09-22 19:38:38.806][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-09-22 19:38:38.808][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-22 19:38:38.808][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-22 19:38:38.808][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-22 19:38:38.809][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-09-22 19:38:38.810][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-22 19:38:38.812][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-22 19:38:38.813][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-22 19:38:38.814][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-22 19:38:38.815][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-22 19:38:38.816][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-22 19:38:38.817][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-09-22 19:38:38.817][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-09-22 19:38:38.818][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-22 19:38:38.819][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-22 19:38:38.820][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-09-22 19:38:38.821][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-09-22 19:38:38.821][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-09-22 19:38:38.823][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-09-22 19:38:38.824][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-09-22 19:38:38.826][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-09-22 19:38:38.827][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-09-22 19:38:38.829][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-09-22 19:38:38.831][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-09-22 19:38:38.835][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-09-22 19:38:38.841][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-09-22 19:38:38.843][biodb::testThat]
biodb.INFO [2025-09-22 19:38:38.845][biodb::testThat] Running test function  test.chebi.encoding.issue.in.xml  (" ChEBI encoding issue in XML is handled. ").
biodb.INFO [2025-09-22 19:38:38.846][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-22 19:38:38.847][biodb::testThat]
sched.DEBUG[2025-09-22 19:38:38.850][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-09-22 19:38:38.853][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-22 19:38:38.858][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-09-22 19:38:38.879][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-09-22 19:38:38.883][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 [2025-09-22 19:38:38.887][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-22 19:38:38.889][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/45b8073beb9f4a9f751edf98e80ca9dd.content.
sched.DEBUG[2025-09-22 19:38:38.890][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-22 19:38:38.895][private$loadEntries] Creating entries from ids [1]: "2571".
biodb.DEBUG[2025-09-22 19:38:38.898][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-22 19:38:38.901][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-22 19:38:38.912][FUN] Found encoding UTF-8 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2571.xml.
biodb.DEBUG[2025-09-22 19:38:38.915][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-22 19:38:38.917][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-22 19:38:38.919][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-22 19:38:38.921][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 19:38:38.922][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:38.923][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:38.930][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:38.931][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:38.932][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:38.933][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.TRACE[2025-09-22 19:38:38.938][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:38.940][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:38.941][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:38.943][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:38.944][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:38.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:38.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:38.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:38.949][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 19:38:38.950][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 19:38:38.951][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:38.952][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:38.953][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 19:38:38.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 19:38:38.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:38.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:38.960][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 19:38:38.961][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 19:38:38.962][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:38.963][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:38.965][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 19:38:38.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 19:38:38.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:38.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:38.969][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 19:38:38.971][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 19:38:38.972][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:38.973][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:38.975][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 19:38:38.976][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 19:38:38.977][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:38.978][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:38.980][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-22 19:38:38.982][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-22 19:38:38.983][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:38.984][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:38.986][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-22 19:38:38.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-22 19:38:38.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:38.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:38.992][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 19:38:38.993][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:38.995][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:38.996][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:38.998][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 19:38:39.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 19:38:39.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:39.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:39.004][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:39.005][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:39.007][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:39.008][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:39.010][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:39.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 19:38:39.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:39.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:39.015][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-22 19:38:39.016][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 19:38:39.018][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:39.019][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:39.021][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-22 19:38:39.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 19:38:39.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:39.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:39.025][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 19:38:39.027][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 19:38:39.028][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:39.029][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:39.031][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 19:38:39.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 19:38:39.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:39.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:39.036][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 19:38:39.038][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 19:38:39.039][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:39.040][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:39.041][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 19:38:39.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 19:38:39.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:39.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:39.046][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:39.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:39.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:39.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:39.052][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:39.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:39.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:39.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:39.056][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:39.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:39.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:39.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:39.062][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 19:38:39.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 19:38:39.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:39.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:39.067][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:39.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:39.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:39.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:39.072][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:39.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:39.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:39.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:39.078][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:39.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:39.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:39.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:39.084][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:39.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:39.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:39.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:39.089][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:39.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:39.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:39.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 19:38:39.095][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 19:38:39.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 19:38:39.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 19:38:39.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 19:38:39.100][self$createEntryFromContent] Accession numbers: 2571.
biodb.INFO [2025-09-22 19:38:39.106][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-09-22 19:38:39.108][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-09-22 19:38:39.109][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-09-22 19:38:39.110][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 19:38:39.111][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 19:38:39.112][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 19:38:39.113][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 19:38:39.115][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 19:38:39.116][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 357 ]
> 
> proc.time()
   user  system elapsed 
 19.347   1.095  23.213

Example timings

biodbChebi.Rcheck/biodbChebi-Ex.timings

nameusersystemelapsed
ChebiConn2.6791.1894.074
ChebiEntry0.3440.0190.387