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This page was generated on 2025-09-01 12:05 -0400 (Mon, 01 Sep 2025).

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

Package 206/2320HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
biodbChebi 1.15.1  (landing page)
Pierrick Roger
Snapshot Date: 2025-08-31 13:45 -0400 (Sun, 31 Aug 2025)
git_url: https://git.bioconductor.org/packages/biodbChebi
git_branch: devel
git_last_commit: b5e26aa
git_last_commit_date: 2025-06-24 10:11:00 -0400 (Tue, 24 Jun 2025)
nebbiolo2Linux (Ubuntu 24.04.3 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
lconwaymacOS 12.7.1 Monterey / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published
kjohnson3macOS 13.7.7 Ventura / arm64  OK    OK    OK    OK  UNNEEDED, same version is already published
taishanLinux (openEuler 24.03 LTS) / aarch64  OK    ERROR  skipped

CHECK results for biodbChebi on kjohnson3

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

raw results


Summary

Package: biodbChebi
Version: 1.15.1
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:biodbChebi.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings biodbChebi_1.15.1.tar.gz
StartedAt: 2025-08-31 18:24:47 -0400 (Sun, 31 Aug 2025)
EndedAt: 2025-08-31 18:25:14 -0400 (Sun, 31 Aug 2025)
EllapsedTime: 27.4 seconds
RetCode: 0
Status:   OK  
CheckDir: biodbChebi.Rcheck
Warnings: 0

Command output

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


* using log directory ‘/Users/biocbuild/bbs-3.22-bioc/meat/biodbChebi.Rcheck’
* using R version 4.5.1 Patched (2025-06-14 r88325)
* using platform: aarch64-apple-darwin20
* R was compiled by
    Apple clang version 16.0.0 (clang-1600.0.26.6)
    GNU Fortran (GCC) 14.2.0
* running under: macOS Ventura 13.7.7
* 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-arm64/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 (2025-06-14 r88325) -- "Great Square Root"
Copyright (C) 2025 The R Foundation for Statistical Computing
Platform: aarch64-apple-darwin20

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

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

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

> # vi: fdm=marker
> # Script needed to run testthat automatically from ‘R CMD check’. See
> # testthat::test_dir documentation.
> library(testthat)
> library(biodbChebi)
> Sys.setenv(TESTTHAT_REPORTER="summary")
> Sys.setenv(BIODB_LOG_DST="console")
> test_check("biodbChebi")
biodb.INFO [2025-08-31 18:25:04.815][biodb::testContext]
biodb.INFO [2025-08-31 18:25:04.816][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-31 18:25:04.816][biodb::testContext] Test context - Generic tests
biodb.INFO [2025-08-31 18:25:04.817][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-31 18:25:04.817][biodb::testContext]
biodb.INFO [2025-08-31 18:25:04.819][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.1.
biodb.DEBUG[2025-08-31 18:25:04.820][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-08-31 18:25:04.823][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-31 18:25:04.823][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-08-31 18:25:04.824][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-08-31 18:25:04.824][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:04.824][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:04.825][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:04.825][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-08-31 18:25:04.830][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-08-31 18:25:04.831][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:04.831][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:04.831][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[2025-08-31 18:25:04.832][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-08-31 18:25:04.832][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-08-31 18:25:04.832][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:04.832][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:04.833][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:04.833][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-08-31 18:25:04.833][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-08-31 18:25:04.833][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-08-31 18:25:04.834][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:04.834][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:04.834][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:04.834][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-08-31 18:25:04.835][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-08-31 18:25:04.835][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-08-31 18:25:04.835][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:04.835][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:04.836][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:04.836][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-08-31 18:25:04.836][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-08-31 18:25:04.836][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:04.837][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:04.837][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.DEBUG[2025-08-31 18:25:04.837][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-08-31 18:25:04.837][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-08-31 18:25:04.838][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-08-31 18:25:04.838][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:04.838][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:04.838][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:04.839][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-08-31 18:25:04.839][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-08-31 18:25:04.839][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:04.839][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:04.840][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:04.840][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-08-31 18:25:04.840][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-08-31 18:25:04.840][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-08-31 18:25:04.841][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:04.841][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:04.841][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:04.841][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-08-31 18:25:04.841][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-08-31 18:25:04.842][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-08-31 18:25:04.842][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-08-31 18:25:04.842][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-08-31 18:25:04.843][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-08-31 18:25:04.843][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:04.843][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:04.843][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:04.843][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-08-31 18:25:04.844][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-08-31 18:25:04.844][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:04.844][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:04.844][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:04.845][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-08-31 18:25:04.845][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-08-31 18:25:04.845][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:04.845][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:04.846][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.DEBUG[2025-08-31 18:25:04.846][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-08-31 18:25:04.846][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-08-31 18:25:04.846][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:04.847][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:04.847][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:04.847][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-08-31 18:25:04.847][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-08-31 18:25:04.848][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-08-31 18:25:04.848][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:04.848][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:04.848][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:04.848][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-08-31 18:25:04.849][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-08-31 18:25:04.854][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-08-31 18:25:04.855][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:04.855][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:04.855][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:04.856][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-08-31 18:25:04.856][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-08-31 18:25:04.856][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-08-31 18:25:04.856][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:04.857][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:04.857][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:04.858][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-08-31 18:25:04.873][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-31 18:25:04.878][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-08-31 18:25:04.878][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-31 18:25:04.878][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-31 18:25:04.879][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-31 18:25:04.879][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-31 18:25:04.879][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-31 18:25:04.879][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-31 18:25:04.880][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-31 18:25:04.880][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-31 18:25:04.880][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-31 18:25:04.880][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-08-31 18:25:04.881][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-31 18:25:04.881][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-31 18:25:04.881][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-31 18:25:04.882][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-31 18:25:04.882][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-31 18:25:04.882][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-31 18:25:04.882][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-31 18:25:04.882][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-31 18:25:04.882][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-31 18:25:04.882][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-31 18:25:04.882][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-31 18:25:04.883][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-31 18:25:04.883][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-31 18:25:04.883][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-31 18:25:04.883][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-31 18:25:04.884][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-31 18:25:04.884][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-31 18:25:04.884][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-31 18:25:04.884][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-31 18:25:04.885][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-31 18:25:04.885][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-08-31 18:25:04.885][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-31 18:25:04.886][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-08-31 18:25:04.886][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-31 18:25:04.886][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-31 18:25:04.887][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-31 18:25:04.887][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-31 18:25:04.887][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-31 18:25:04.887][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-31 18:25:04.888][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-31 18:25:04.888][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-31 18:25:04.888][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-31 18:25:04.888][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-08-31 18:25:04.889][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-31 18:25:04.889][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-31 18:25:04.889][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-31 18:25:04.889][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-31 18:25:04.889][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-31 18:25:04.889][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-31 18:25:04.889][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-31 18:25:04.889][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-31 18:25:04.890][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-31 18:25:04.890][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-31 18:25:04.890][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-31 18:25:04.890][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-31 18:25:04.891][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-31 18:25:04.891][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-31 18:25:04.891][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-31 18:25:04.891][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-31 18:25:04.892][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-31 18:25:04.892][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-31 18:25:04.892][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-31 18:25:04.893][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-31 18:25:04.893][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-08-31 18:25:04.893][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-31 18:25:04.894][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-08-31 18:25:04.894][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-31 18:25:04.894][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-31 18:25:04.894][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-31 18:25:04.895][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-31 18:25:04.895][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-31 18:25:04.895][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-31 18:25:04.895][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-31 18:25:04.896][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-31 18:25:04.896][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-31 18:25:04.896][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-08-31 18:25:04.897][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-31 18:25:04.897][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-31 18:25:04.897][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-31 18:25:04.897][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-08-31 18:25:04.898][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-31 18:25:04.898][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-31 18:25:04.898][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-31 18:25:04.898][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-31 18:25:04.899][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-31 18:25:04.899][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-31 18:25:04.899][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-31 18:25:04.899][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-31 18:25:04.900][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-31 18:25:04.900][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-31 18:25:04.900][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-31 18:25:04.900][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-31 18:25:04.901][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-08-31 18:25:04.901][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-31 18:25:04.901][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-08-31 18:25:04.902][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-31 18:25:04.902][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-31 18:25:04.902][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-31 18:25:04.903][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-31 18:25:04.903][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-31 18:25:04.903][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-31 18:25:04.903][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-31 18:25:04.904][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-31 18:25:04.904][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-31 18:25:04.904][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-08-31 18:25:04.904][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-31 18:25:04.905][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-31 18:25:04.905][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-31 18:25:04.905][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-08-31 18:25:04.905][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-31 18:25:04.906][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-31 18:25:04.906][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-31 18:25:04.906][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-31 18:25:04.906][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-31 18:25:04.907][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-31 18:25:04.907][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-31 18:25:04.907][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-31 18:25:04.907][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-31 18:25:04.908][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-31 18:25:04.908][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-31 18:25:04.908][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-31 18:25:04.910][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-31 18:25:04.910][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:04.910][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:04.911][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:04.911][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:04.911][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:04.911][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:04.912][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:04.912][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:04.912][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:04.912][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:04.913][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:04.913][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:04.913][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:04.913][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:04.913][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:04.914][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:04.914][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:04.914][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:04.914][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:04.915][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:04.915][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:04.915][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:04.915][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:04.916][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:04.916][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:04.916][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:04.916][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:04.917][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:04.917][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:04.920][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:04.920][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:04.921][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[2025-08-31 18:25:04.921][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:04.921][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:04.922][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:04.922][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:04.922][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.DEBUG[2025-08-31 18:25:04.923][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:04.923][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:04.923][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:04.924][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:04.924][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:04.924][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:04.925][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:04.925][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:04.925][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:04.925][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:04.926][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:04.926][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:04.926][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:04.926][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:04.927][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:04.927][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:04.927][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:04.927][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:04.928][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:04.928][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:04.928][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:04.928][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:04.929][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:04.929][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:04.930][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:04.930][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:04.930][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:04.930][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:04.931][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:04.931][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:04.931][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:04.931][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:04.932][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:04.932][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:04.932][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:04.932][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:04.933][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:04.933][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:04.933][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:04.933][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:04.934][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:04.934][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:04.934][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:04.934][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:04.935][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:04.935][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-08-31 18:25:04.937][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-08-31 18:25:04.937][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-08-31 18:25:04.938][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-08-31 18:25:04.938][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-08-31 18:25:04.938][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-08-31 18:25:04.939][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-08-31 18:25:04.939][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-08-31 18:25:04.940][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-08-31 18:25:04.940][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-08-31 18:25:04.940][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-08-31 18:25:04.941][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-08-31 18:25:04.941][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-08-31 18:25:04.942][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-08-31 18:25:04.942][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-08-31 18:25:04.942][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-08-31 18:25:04.943][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-08-31 18:25:04.943][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-08-31 18:25:04.943][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-08-31 18:25:04.944][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-08-31 18:25:04.944][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-08-31 18:25:04.945][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-08-31 18:25:04.945][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-08-31 18:25:04.945][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-08-31 18:25:04.946][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-08-31 18:25:04.946][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-08-31 18:25:04.946][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-08-31 18:25:04.947][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-08-31 18:25:04.947][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-08-31 18:25:04.948][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-08-31 18:25:04.948][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-08-31 18:25:04.948][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-08-31 18:25:04.949][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-08-31 18:25:04.949][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-08-31 18:25:04.949][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-08-31 18:25:04.950][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-08-31 18:25:04.950][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-08-31 18:25:04.951][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-08-31 18:25:04.951][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-08-31 18:25:04.951][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-08-31 18:25:04.952][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-08-31 18:25:04.952][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-08-31 18:25:04.953][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-08-31 18:25:04.953][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-08-31 18:25:04.953][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-08-31 18:25:04.954][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-08-31 18:25:04.954][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-08-31 18:25:04.954][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-08-31 18:25:04.955][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-08-31 18:25:04.955][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-08-31 18:25:04.956][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-08-31 18:25:04.956][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-08-31 18:25:04.956][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-08-31 18:25:04.957][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-08-31 18:25:04.957][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-08-31 18:25:04.957][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-08-31 18:25:04.958][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-08-31 18:25:04.958][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-08-31 18:25:04.959][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-08-31 18:25:04.959][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-08-31 18:25:04.959][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-08-31 18:25:04.960][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-08-31 18:25:04.960][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-08-31 18:25:04.960][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-08-31 18:25:04.961][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-08-31 18:25:04.961][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-08-31 18:25:04.962][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-08-31 18:25:04.962][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-08-31 18:25:04.962][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-08-31 18:25:04.963][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-08-31 18:25:04.963][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-08-31 18:25:04.963][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-08-31 18:25:04.964][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-08-31 18:25:04.964][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-08-31 18:25:04.964][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-08-31 18:25:04.965][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-08-31 18:25:04.965][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-08-31 18:25:04.966][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-08-31 18:25:04.966][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-08-31 18:25:04.966][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-08-31 18:25:04.967][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-08-31 18:25:04.967][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-08-31 18:25:04.968][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-08-31 18:25:04.969][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-08-31 18:25:04.970][initialize] This is biodb version 1.17.1.
biodb.DEBUG[2025-08-31 18:25:04.971][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-31 18:25:04.972][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:04.972][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:04.972][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:04.975][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:04.977][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:04.977][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:04.977][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:04.977][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:04.978][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:04.978][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:04.978][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:04.978][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:04.979][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:04.979][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:04.979][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:04.979][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:04.980][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:04.980][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:04.980][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:04.980][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:04.981][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:04.981][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:04.981][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:04.981][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:04.982][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:04.982][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:04.982][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:04.982][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:04.983][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:04.983][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:04.983][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:04.983][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:04.983][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:04.984][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:04.984][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:04.984][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:04.984][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:04.985][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:04.985][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:04.985][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:04.985][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:04.986][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:04.986][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:04.986][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:04.986][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:04.986][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[2025-08-31 18:25:04.987][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:04.987][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:04.987][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:04.987][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:04.988][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:04.988][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:04.988][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:04.988][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:04.989][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:04.989][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:04.989][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:04.989][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:04.989][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:04.990][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[2025-08-31 18:25:04.990][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:04.990][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:04.990][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:04.991][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:04.991][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:04.991][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:04.991][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:04.991][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:04.992][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:04.992][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:04.992][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:04.992][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:04.993][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:04.993][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:04.993][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:04.993][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:04.994][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:04.994][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:04.994][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:04.994][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:04.994][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:04.995][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:04.995][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:04.995][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:04.995][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:04.996][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:04.996][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:04.996][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:04.996][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:04.996][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:04.997][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:04.997][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:04.997][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:04.997][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:04.998][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[2025-08-31 18:25:04.998][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:04.998][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:04.998][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:04.999][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:04.999][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:04.999][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:04.999][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:04.999][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:05.000][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:05.000][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:05.000][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:05.000][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:05.001][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:05.001][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:05.001][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:05.001][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:05.002][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:05.002][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:05.002][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:05.002][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:05.002][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:05.003][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-08-31 18:25:05.006][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-08-31 18:25:05.007][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-31 18:25:05.007][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-08-31 18:25:05.007][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-31 18:25:05.008][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-31 18:25:05.008][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-31 18:25:05.008][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-31 18:25:05.009][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-08-31 18:25:05.009][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-08-31 18:25:05.009][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-08-31 18:25:05.009][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-31 18:25:05.010][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-31 18:25:05.010][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-08-31 18:25:05.010][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-31 18:25:05.010][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-08-31 18:25:05.010][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-08-31 18:25:05.010][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-08-31 18:25:05.010][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-08-31 18:25:05.010][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-08-31 18:25:05.010][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-08-31 18:25:05.010][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-08-31 18:25:05.010][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-08-31 18:25:05.010][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-08-31 18:25:05.010][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-08-31 18:25:05.010][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-08-31 18:25:05.011][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-08-31 18:25:05.011][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-31 18:25:05.011][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-31 18:25:05.011][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-31 18:25:05.011][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-08-31 18:25:05.012][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-31 18:25:05.012][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-31 18:25:05.012][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-31 18:25:05.012][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-31 18:25:05.013][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-31 18:25:05.013][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-31 18:25:05.013][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-31 18:25:05.013][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-08-31 18:25:05.013][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-31 18:25:05.014][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-31 18:25:05.014][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-08-31 18:25:05.014][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-08-31 18:25:05.014][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-08-31 18:25:05.016][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-08-31 18:25:05.017][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-08-31 18:25:05.017][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-08-31 18:25:05.017][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-08-31 18:25:05.018][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-08-31 18:25:05.018][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-08-31 18:25:05.028][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-08-31 18:25:05.038][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-08-31 18:25:05.042][biodb::testThat]
biodb.INFO [2025-08-31 18:25:05.042][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2025-08-31 18:25:05.042][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-31 18:25:05.043][biodb::testThat]
biodb.TRACE[2025-08-31 18:25:05.044][loadFileContents] Loaded 1 files from cache: [1]: "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2025-08-31 18:25:05.045][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-31 18:25:05.047][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-31 18:25:05.050][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:05.051][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:05.051][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:05.057][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:05.057][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:05.057][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:05.057][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:05.061][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:05.062][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:05.062][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.063][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.063][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:05.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:05.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.069][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 18:25:05.069][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 18:25:05.070][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.070][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.079][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 18:25:05.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 18:25:05.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.080][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 18:25:05.080][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 18:25:05.081][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.082][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.082][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 18:25:05.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 18:25:05.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.083][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 18:25:05.084][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 18:25:05.084][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.084][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.084][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 18:25:05.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 18:25:05.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.086][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 18:25:05.086][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 18:25:05.086][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.086][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.087][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 18:25:05.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 18:25:05.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.088][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-31 18:25:05.088][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-31 18:25:05.088][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.089][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.089][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-31 18:25:05.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-31 18:25:05.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.090][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 18:25:05.091][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:05.091][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.092][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.092][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 18:25:05.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:05.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.093][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:05.094][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:05.094][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.094][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.095][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:05.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:05.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.096][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-31 18:25:05.096][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 18:25:05.096][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.096][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.097][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-31 18:25:05.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 18:25:05.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.103][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 18:25:05.103][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 18:25:05.103][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.104][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.104][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 18:25:05.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 18:25:05.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.105][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 18:25:05.105][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 18:25:05.106][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.106][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.106][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 18:25:05.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 18:25:05.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.107][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:05.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:05.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.108][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:05.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:05.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.109][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:05.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:05.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.110][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:05.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:05.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.112][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:05.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:05.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.113][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:05.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:05.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.114][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:05.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:05.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.125][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:05.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:05.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.126][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:05.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:05.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.127][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:05.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:05.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:05.128][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2025-08-31 18:25:05.129][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 18:25:05.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 18:25:05.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.131][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 18:25:05.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 18:25:05.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.139][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 18:25:05.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 18:25:05.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.143][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 18:25:05.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 18:25:05.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.144][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:05.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:05.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.145][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:05.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:05.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.146][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-31 18:25:05.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-31 18:25:05.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.147][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-31 18:25:05.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-31 18:25:05.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.148][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-31 18:25:05.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-31 18:25:05.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.149][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-31 18:25:05.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-31 18:25:05.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.151][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:05.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:05.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.157][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:05.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:05.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.159][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:05.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:05.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.161][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:05.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:05.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.162][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:05.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:05.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.163][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:05.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:05.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.165][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:05.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:05.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.166][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:05.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:05.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.167][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:05.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:05.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.168][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:05.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:05.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.169][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:05.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:05.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.173][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:05.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:05.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.174][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:05.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:05.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.175][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:05.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:05.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.176][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:05.177][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:05.177][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.177][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.178][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:05.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:05.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.181][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:05.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:05.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.183][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:05.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:05.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.184][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:05.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:05.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.185][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:05.185][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:05.185][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.186][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.186][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:05.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:05.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.192][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-31 18:25:05.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 18:25:05.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.193][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-31 18:25:05.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 18:25:05.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.194][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-31 18:25:05.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 18:25:05.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.195][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-31 18:25:05.196][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 18:25:05.196][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.196][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.196][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-31 18:25:05.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 18:25:05.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.200][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 18:25:05.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 18:25:05.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.201][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 18:25:05.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 18:25:05.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.202][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 18:25:05.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 18:25:05.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.203][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 18:25:05.203][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 18:25:05.204][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.204][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.204][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 18:25:05.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 18:25:05.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.208][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:05.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:05.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.209][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:05.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:05.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.210][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:05.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:05.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.211][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:05.211][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:05.212][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.212][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.212][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:05.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:05.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.216][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:05.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:05.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.217][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:05.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:05.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.218][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:05.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:05.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.219][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:05.219][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:05.220][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.220][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.220][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:05.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:05.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.224][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 18:25:05.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 18:25:05.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.225][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 18:25:05.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 18:25:05.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.226][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 18:25:05.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 18:25:05.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.227][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 18:25:05.227][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 18:25:05.228][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.228][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.228][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 18:25:05.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 18:25:05.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.231][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-31 18:25:05.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 18:25:05.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.250][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-31 18:25:05.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 18:25:05.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.251][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-31 18:25:05.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 18:25:05.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.253][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-31 18:25:05.253][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 18:25:05.253][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.254][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.254][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-31 18:25:05.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 18:25:05.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.258][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-31 18:25:05.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-31 18:25:05.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.259][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-31 18:25:05.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-31 18:25:05.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.260][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-31 18:25:05.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-31 18:25:05.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.261][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-31 18:25:05.261][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-31 18:25:05.262][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.262][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.262][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-31 18:25:05.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-31 18:25:05.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.266][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 18:25:05.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 18:25:05.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.267][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 18:25:05.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 18:25:05.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.268][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 18:25:05.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 18:25:05.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.269][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 18:25:05.269][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 18:25:05.269][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.270][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.270][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 18:25:05.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 18:25:05.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.273][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 18:25:05.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 18:25:05.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.275][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 18:25:05.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 18:25:05.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.276][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 18:25:05.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 18:25:05.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.277][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 18:25:05.277][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 18:25:05.277][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.278][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.278][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 18:25:05.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 18:25:05.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.282][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 18:25:05.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 18:25:05.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.283][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 18:25:05.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 18:25:05.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.284][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 18:25:05.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 18:25:05.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.285][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 18:25:05.285][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 18:25:05.286][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.286][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.286][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 18:25:05.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 18:25:05.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.290][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:05.290][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:05.290][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.291][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.292][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 18:25:05.292][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 18:25:05.293][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.293][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.297][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 18:25:05.297][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 18:25:05.298][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.298][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.300][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 18:25:05.300][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 18:25:05.300][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.300][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.302][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 18:25:05.302][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 18:25:05.303][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.303][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.304][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-31 18:25:05.305][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-31 18:25:05.305][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.305][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.307][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:05.307][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:05.307][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.308][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.309][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:05.309][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:05.310][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.310][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.311][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-31 18:25:05.312][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 18:25:05.312][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.312][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.314][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-31 18:25:05.314][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 18:25:05.314][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.315][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.316][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 18:25:05.316][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 18:25:05.317][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.317][ef$get] fields variable is a list.
biodb.INFO [2025-08-31 18:25:05.320][biodb::testThat]
biodb.INFO [2025-08-31 18:25:05.320][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2025-08-31 18:25:05.320][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-31 18:25:05.320][biodb::testThat]
biodb.DEBUG[2025-08-31 18:25:05.325][private$loadEntries] Creating entries from ids [1]: "15440".
biodb.DEBUG[2025-08-31 18:25:05.330][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-31 18:25:05.331][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-31 18:25:05.334][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15440.xml.
biodb.DEBUG[2025-08-31 18:25:05.334][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-31 18:25:05.341][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-31 18:25:05.342][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-31 18:25:05.342][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:05.343][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:05.343][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:05.345][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:05.345][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:05.345][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:05.345][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:05.346][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:05.347][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:05.347][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.347][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.347][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:05.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:05.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.357][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 18:25:05.357][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 18:25:05.358][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.358][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.358][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 18:25:05.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 18:25:05.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.360][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 18:25:05.360][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 18:25:05.360][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.360][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.361][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 18:25:05.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 18:25:05.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.362][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 18:25:05.362][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 18:25:05.362][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.363][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.363][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 18:25:05.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 18:25:05.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.364][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 18:25:05.364][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 18:25:05.365][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.365][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.365][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 18:25:05.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 18:25:05.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.366][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-31 18:25:05.366][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-31 18:25:05.367][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.367][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.367][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-31 18:25:05.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-31 18:25:05.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.368][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 18:25:05.369][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:05.369][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.369][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.369][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 18:25:05.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:05.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.371][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:05.371][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:05.371][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.371][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.372][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:05.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:05.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.373][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-31 18:25:05.373][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 18:25:05.373][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.373][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.374][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-31 18:25:05.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 18:25:05.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.375][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 18:25:05.375][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 18:25:05.375][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.376][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.376][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 18:25:05.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 18:25:05.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.377][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 18:25:05.377][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 18:25:05.378][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.378][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.378][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 18:25:05.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 18:25:05.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.379][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:05.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:05.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.380][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:05.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:05.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.382][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:05.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:05.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.383][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:05.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:05.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.384][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:05.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:05.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.385][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:05.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:05.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.386][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:05.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:05.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.387][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:05.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:05.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.388][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:05.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:05.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.390][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:05.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:05.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:05.393][self$createEntryFromContent] Accession numbers: 15440.
biodb.TRACE[2025-08-31 18:25:05.393][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2025-08-31 18:25:05.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2025-08-31 18:25:05.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.395][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2025-08-31 18:25:05.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2025-08-31 18:25:05.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.396][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2025-08-31 18:25:05.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2025-08-31 18:25:05.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-08-31 18:25:05.400][biodb::testThat]
biodb.INFO [2025-08-31 18:25:05.400][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2025-08-31 18:25:05.400][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-31 18:25:05.400][biodb::testThat]
biodb.TRACE[2025-08-31 18:25:05.401][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-31 18:25:05.402][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 18:25:05.402][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.402][ef$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:05.403][function(conn, opt)] Testing searchForEntries() with entry "15440" and field "name".
biodb.TRACE[2025-08-31 18:25:05.411][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-31 18:25:05.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 18:25:05.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.412][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-31 18:25:05.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 18:25:05.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.413][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-31 18:25:05.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 18:25:05.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:05.415][function(conn, opt)] With value "squalene".
sched.DEBUG[2025-08-31 18:25:05.417][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-08-31 18:25:05.424][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-31 18:25:05.426][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-08-31 18:25:05.426][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-08-31 18:25:05.433][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-08-31 18:25:05.445][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-31 18:25:05.446][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-08-31 18:25:05.447][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-31 18:25:05.447][function(conn, opt)] With found IDs [1]: "15440".
biodb.TRACE[2025-08-31 18:25:05.451][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:05.452][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:05.452][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.452][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.453][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:05.453][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:05.453][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.453][ef$get] fields variable is a list.
biodb.INFO [2025-08-31 18:25:05.455][biodb::testThat]
biodb.INFO [2025-08-31 18:25:05.455][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2025-08-31 18:25:05.456][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-31 18:25:05.456][biodb::testThat]
biodb.TRACE[2025-08-31 18:25:05.464][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-31 18:25:05.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 18:25:05.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.465][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-31 18:25:05.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 18:25:05.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.466][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-31 18:25:05.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 18:25:05.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-08-31 18:25:05.488][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-08-31 18:25:05.489][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-31 18:25:05.490][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-08-31 18:25:05.490][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.INFO [2025-08-31 18:25:05.496][biodb::testThat]
biodb.INFO [2025-08-31 18:25:05.496][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2025-08-31 18:25:05.497][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-31 18:25:05.497][biodb::testThat]
biodb.TRACE[2025-08-31 18:25:05.504][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 18:25:05.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 18:25:05.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.505][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 18:25:05.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 18:25:05.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.506][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 18:25:05.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 18:25:05.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.507][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 18:25:05.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 18:25:05.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.509][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:05.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:05.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.510][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:05.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:05.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.511][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-31 18:25:05.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-31 18:25:05.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.512][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-31 18:25:05.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-31 18:25:05.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.513][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-31 18:25:05.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-31 18:25:05.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.514][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-31 18:25:05.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-31 18:25:05.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.521][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 18:25:05.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 18:25:05.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.523][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 18:25:05.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 18:25:05.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.524][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 18:25:05.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 18:25:05.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.525][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 18:25:05.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 18:25:05.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.526][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:05.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:05.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.527][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:05.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:05.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.530][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-31 18:25:05.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-31 18:25:05.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.532][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-31 18:25:05.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-31 18:25:05.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.533][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-31 18:25:05.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-31 18:25:05.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:05.534][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-31 18:25:05.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-31 18:25:05.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:05.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-08-31 18:25:05.537][biodb::testThat]
biodb.INFO [2025-08-31 18:25:05.538][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2025-08-31 18:25:05.538][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-31 18:25:05.538][biodb::testThat]
biodb.INFO [2025-08-31 18:25:05.541][biodb::testThat]
biodb.INFO [2025-08-31 18:25:05.541][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2025-08-31 18:25:05.541][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-31 18:25:05.542][biodb::testThat]
biodb.INFO [2025-08-31 18:25:05.544][biodb::testThat]
biodb.INFO [2025-08-31 18:25:05.544][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2025-08-31 18:25:05.545][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-31 18:25:05.545][biodb::testThat]
biodb.DEBUG[2025-08-31 18:25:05.546][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
sched.TRACE[2025-08-31 18:25:06.263][try_get_rcurl_content] Using RCurl package for sending request (https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440).
biodb.INFO [2025-08-31 18:25:07.509][biodb::testThat]
biodb.INFO [2025-08-31 18:25:07.510][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2025-08-31 18:25:07.510][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-31 18:25:07.510][biodb::testThat]
biodb.TRACE[2025-08-31 18:25:07.512][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-31 18:25:07.513][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 18:25:07.513][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.513][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.513][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:07.514][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:07.514][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.514][ef$get] fields variable is a list.
biodb.INFO [2025-08-31 18:25:07.515][biodb::testThat]
biodb.INFO [2025-08-31 18:25:07.515][biodb::testThat] Running test function  test.searchCompound  (" We can search for a compound ").
biodb.INFO [2025-08-31 18:25:07.515][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-31 18:25:07.516][biodb::testThat]
biodb.TRACE[2025-08-31 18:25:07.519][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-31 18:25:07.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 18:25:07.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.520][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-31 18:25:07.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 18:25:07.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.521][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-31 18:25:07.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 18:25:07.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-08-31 18:25:07.558][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-08-31 18:25:07.559][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-31 18:25:07.560][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-08-31 18:25:07.561][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-08-31 18:25:07.589][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-08-31 18:25:07.590][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-31 18:25:07.591][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-08-31 18:25:07.591][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.TRACE[2025-08-31 18:25:07.596][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-31 18:25:07.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-31 18:25:07.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.599][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:07.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:07.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.600][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:07.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:07.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.601][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:07.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:07.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.602][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:07.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:07.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.603][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:07.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:07.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-08-31 18:25:07.607][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-08-31 18:25:07.607][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-31 18:25:07.609][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-08-31 18:25:07.609][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-31 18:25:07.610][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:07.610][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:07.611][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:07.612][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:07.613][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:07.613][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:07.613][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.DEBUG[2025-08-31 18:25:07.613][private$loadEntries] Creating entries from ids [1]: "192288".
biodb.DEBUG[2025-08-31 18:25:07.631][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-31 18:25:07.631][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-31 18:25:07.633][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/192288.xml.
biodb.DEBUG[2025-08-31 18:25:07.633][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-31 18:25:07.634][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-31 18:25:07.634][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-31 18:25:07.635][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:07.635][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:07.635][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:07.638][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:07.638][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:07.638][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:07.638][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:07.639][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:07.639][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:07.640][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.640][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.640][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:07.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:07.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.642][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 18:25:07.642][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 18:25:07.642][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.642][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.643][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 18:25:07.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 18:25:07.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.644][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 18:25:07.644][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 18:25:07.644][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.645][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.645][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 18:25:07.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 18:25:07.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.646][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 18:25:07.647][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 18:25:07.647][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.647][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.648][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 18:25:07.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 18:25:07.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.649][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 18:25:07.649][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 18:25:07.649][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.649][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.650][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 18:25:07.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 18:25:07.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.651][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-31 18:25:07.651][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-31 18:25:07.651][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.652][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.652][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 18:25:07.652][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:07.652][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.653][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.653][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 18:25:07.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:07.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.654][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:07.654][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:07.655][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.655][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.655][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:07.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:07.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.656][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-31 18:25:07.657][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 18:25:07.657][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.657][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.657][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-31 18:25:07.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 18:25:07.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.659][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 18:25:07.661][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 18:25:07.662][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.662][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.663][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 18:25:07.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 18:25:07.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.664][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 18:25:07.664][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 18:25:07.664][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.665][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.665][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 18:25:07.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 18:25:07.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.666][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:07.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:07.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.667][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:07.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:07.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.668][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:07.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:07.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.669][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:07.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:07.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.670][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:07.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:07.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.671][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:07.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:07.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.673][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:07.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:07.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.674][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:07.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:07.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.675][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:07.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:07.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.676][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:07.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:07.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:07.677][self$createEntryFromContent] Accession numbers: 192288.
biodb.TRACE[2025-08-31 18:25:07.680][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:07.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:07.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.681][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:07.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:07.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.682][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:07.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:07.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-08-31 18:25:07.684][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-08-31 18:25:07.685][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-31 18:25:07.686][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-08-31 18:25:07.687][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-31 18:25:07.691][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:07.692][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:07.692][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:07.694][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:07.694][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:07.694][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:07.694][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:07.695][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:07.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:07.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.696][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:07.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:07.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.697][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:07.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:07.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:07.701][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:07.701][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:07.701][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:07.703][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:07.703][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:07.703][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:07.704][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:07.704][private$loadEntries] Creating entries from ids [1]: "209892".
biodb.DEBUG[2025-08-31 18:25:07.704][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-31 18:25:07.705][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-31 18:25:07.706][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/209892.xml.
biodb.DEBUG[2025-08-31 18:25:07.706][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-31 18:25:07.707][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-31 18:25:07.707][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-31 18:25:07.708][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:07.708][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:07.708][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:07.710][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:07.710][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:07.710][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:07.711][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:07.711][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:07.712][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:07.712][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.712][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.713][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:07.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:07.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.714][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 18:25:07.714][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 18:25:07.714][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.714][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.715][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 18:25:07.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 18:25:07.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.716][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 18:25:07.716][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 18:25:07.716][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.717][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.717][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 18:25:07.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 18:25:07.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.718][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 18:25:07.718][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 18:25:07.719][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.719][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.719][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 18:25:07.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 18:25:07.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.720][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 18:25:07.720][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 18:25:07.721][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.721][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.721][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 18:25:07.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 18:25:07.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.722][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-31 18:25:07.723][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-31 18:25:07.723][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.723][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.723][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 18:25:07.724][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:07.724][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.724][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.725][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 18:25:07.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:07.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.726][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:07.726][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:07.726][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.726][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.727][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:07.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:07.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.728][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-31 18:25:07.728][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 18:25:07.728][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.729][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.729][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-31 18:25:07.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 18:25:07.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.730][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 18:25:07.730][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 18:25:07.730][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.731][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.731][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 18:25:07.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 18:25:07.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.732][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 18:25:07.732][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 18:25:07.733][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.733][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.733][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 18:25:07.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 18:25:07.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.734][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:07.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:07.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.735][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:07.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:07.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.739][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:07.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:07.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.740][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:07.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:07.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.741][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:07.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:07.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.742][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:07.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:07.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.743][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:07.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:07.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.744][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:07.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:07.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.745][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:07.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:07.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.746][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:07.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:07.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:07.747][self$createEntryFromContent] Accession numbers: 209892.
biodb.TRACE[2025-08-31 18:25:07.748][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:07.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:07.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.749][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:07.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:07.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.750][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:07.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:07.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-08-31 18:25:07.757][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-08-31 18:25:07.757][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-31 18:25:07.759][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-08-31 18:25:07.759][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-31 18:25:07.760][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:07.760][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:07.760][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:07.762][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:07.762][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:07.762][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:07.763][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:07.763][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:07.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:07.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.764][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:07.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:07.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.765][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:07.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:07.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:07.766][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:07.766][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:07.767][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:07.768][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:07.768][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:07.769][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:07.769][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:07.769][private$loadEntries] Creating entries from ids [1]: "26747".
biodb.DEBUG[2025-08-31 18:25:07.769][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-31 18:25:07.770][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-31 18:25:07.771][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26747.xml.
biodb.DEBUG[2025-08-31 18:25:07.771][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-31 18:25:07.772][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-31 18:25:07.772][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-31 18:25:07.772][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:07.773][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:07.773][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:07.774][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:07.775][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:07.775][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:07.775][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:07.776][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:07.779][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:07.779][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.779][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.780][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:07.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:07.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.781][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 18:25:07.781][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 18:25:07.781][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.782][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.782][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 18:25:07.782][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 18:25:07.783][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.783][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.783][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 18:25:07.783][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 18:25:07.784][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.784][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.784][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 18:25:07.785][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 18:25:07.785][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.785][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.785][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-31 18:25:07.786][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-31 18:25:07.786][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.786][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.786][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 18:25:07.787][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:07.787][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.787][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.788][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:07.788][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:07.788][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.788][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.789][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-31 18:25:07.789][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 18:25:07.789][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.789][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.790][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-31 18:25:07.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 18:25:07.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.791][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 18:25:07.791][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 18:25:07.791][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.792][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.792][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 18:25:07.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 18:25:07.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.793][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 18:25:07.793][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 18:25:07.794][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.794][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.794][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:07.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:07.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.795][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:07.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:07.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.796][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:07.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:07.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.797][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:07.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:07.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.798][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:07.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:07.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.799][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:07.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:07.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.800][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:07.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:07.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.801][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:07.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:07.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.802][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:07.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:07.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.803][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:07.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:07.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:07.804][self$createEntryFromContent] Accession numbers: 26747.
biodb.TRACE[2025-08-31 18:25:07.805][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:07.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:07.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.806][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:07.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:07.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.807][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:07.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:07.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.808][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:07.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:07.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.809][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:07.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:07.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:07.810][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:07.810][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:07.810][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:07.815][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:07.815][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:07.815][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:07.815][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:07.816][private$loadEntries] Creating entries from ids [1]: "59285".
biodb.DEBUG[2025-08-31 18:25:07.816][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-31 18:25:07.817][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-31 18:25:07.818][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/59285.xml.
biodb.DEBUG[2025-08-31 18:25:07.818][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-31 18:25:07.819][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-31 18:25:07.819][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-31 18:25:07.820][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:07.820][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:07.820][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:07.822][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:07.822][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:07.822][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:07.822][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:07.823][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:07.823][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:07.824][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.824][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.824][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:07.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:07.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.825][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 18:25:07.826][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 18:25:07.826][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.826][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.827][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 18:25:07.827][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 18:25:07.827][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.827][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.828][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 18:25:07.828][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 18:25:07.828][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.828][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.829][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 18:25:07.829][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 18:25:07.829][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.829][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.830][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-31 18:25:07.830][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-31 18:25:07.830][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.831][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.831][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 18:25:07.831][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:07.831][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.832][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.832][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:07.832][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:07.832][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.833][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.833][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-31 18:25:07.833][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 18:25:07.833][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.834][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.834][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-31 18:25:07.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 18:25:07.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.835][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 18:25:07.836][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 18:25:07.836][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.836][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.836][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 18:25:07.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 18:25:07.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.837][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 18:25:07.838][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 18:25:07.838][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.838][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.838][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:07.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:07.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.840][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:07.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:07.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.841][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:07.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:07.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.842][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:07.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:07.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.843][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:07.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:07.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.844][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:07.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:07.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.845][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:07.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:07.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.846][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:07.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:07.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.847][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:07.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:07.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.848][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:07.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:07.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:07.851][self$createEntryFromContent] Accession numbers: 59285.
biodb.TRACE[2025-08-31 18:25:07.851][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:07.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:07.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.853][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:07.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:07.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.854][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:07.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:07.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.855][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:07.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:07.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.856][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:07.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:07.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:07.857][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:07.857][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:07.857][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:07.859][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:07.859][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:07.860][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:07.860][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:07.860][private$loadEntries] Creating entries from ids [1]: "75174".
biodb.DEBUG[2025-08-31 18:25:07.860][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-31 18:25:07.861][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-31 18:25:07.862][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75174.xml.
biodb.DEBUG[2025-08-31 18:25:07.863][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-31 18:25:07.863][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-31 18:25:07.863][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-31 18:25:07.864][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:07.864][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:07.864][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:07.866][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:07.866][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:07.866][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:07.867][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:07.867][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:07.868][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:07.868][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.868][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.869][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:07.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:07.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.870][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 18:25:07.870][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 18:25:07.870][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.870][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.871][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 18:25:07.871][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 18:25:07.871][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.872][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.872][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 18:25:07.872][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 18:25:07.873][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.873][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.873][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 18:25:07.873][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 18:25:07.874][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.874][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.874][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-31 18:25:07.874][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-31 18:25:07.875][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.875][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.875][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 18:25:07.876][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:07.876][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.876][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.876][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:07.877][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:07.877][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.877][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.877][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-31 18:25:07.878][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 18:25:07.878][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.878][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.879][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-31 18:25:07.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 18:25:07.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.880][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 18:25:07.880][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 18:25:07.880][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.881][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.881][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 18:25:07.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 18:25:07.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.882][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 18:25:07.882][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 18:25:07.882][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.883][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.883][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:07.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:07.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.884][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:07.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:07.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.885][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:07.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:07.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.886][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:07.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:07.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.890][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:07.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:07.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.891][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:07.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:07.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.892][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:07.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:07.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.893][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:07.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:07.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.894][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:07.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:07.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.895][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:07.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:07.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:07.897][self$createEntryFromContent] Accession numbers: 75174.
biodb.TRACE[2025-08-31 18:25:07.897][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:07.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:07.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.898][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:07.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:07.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.899][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:07.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:07.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.900][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:07.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:07.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.901][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:07.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:07.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:07.902][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:07.902][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:07.903][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:07.905][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:07.905][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:07.905][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:07.905][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:07.906][private$loadEntries] Creating entries from ids [1]: "15441".
biodb.DEBUG[2025-08-31 18:25:07.906][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-31 18:25:07.906][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-31 18:25:07.908][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15441.xml.
biodb.DEBUG[2025-08-31 18:25:07.909][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-31 18:25:07.909][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-31 18:25:07.909][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-31 18:25:07.910][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:07.910][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:07.911][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:07.912][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:07.913][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:07.913][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:07.913][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:07.914][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:07.914][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:07.914][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.915][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.915][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:07.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:07.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.916][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 18:25:07.916][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 18:25:07.917][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.917][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.917][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 18:25:07.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 18:25:07.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.918][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 18:25:07.919][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 18:25:07.919][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.919][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.920][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 18:25:07.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 18:25:07.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.921][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 18:25:07.921][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 18:25:07.921][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.921][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.922][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 18:25:07.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 18:25:07.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.923][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 18:25:07.923][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 18:25:07.923][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.924][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.924][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 18:25:07.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 18:25:07.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.925][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-31 18:25:07.925][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-31 18:25:07.926][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.926][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.929][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-31 18:25:07.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-31 18:25:07.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.930][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 18:25:07.930][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:07.931][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.931][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.931][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 18:25:07.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:07.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.932][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:07.933][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:07.933][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.933][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.934][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:07.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:07.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.935][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-31 18:25:07.935][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 18:25:07.935][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.935][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.936][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-31 18:25:07.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 18:25:07.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.937][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 18:25:07.937][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 18:25:07.938][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.938][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.938][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 18:25:07.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 18:25:07.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.939][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 18:25:07.940][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 18:25:07.940][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.940][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.941][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 18:25:07.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 18:25:07.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.942][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:07.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:07.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.943][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:07.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:07.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.944][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:07.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:07.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.945][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:07.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:07.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.946][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:07.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:07.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.947][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:07.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:07.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.948][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:07.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:07.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.949][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:07.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:07.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.950][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:07.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:07.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.951][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:07.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:07.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:07.952][self$createEntryFromContent] Accession numbers: 15441.
biodb.TRACE[2025-08-31 18:25:07.953][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:07.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:07.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.954][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:07.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:07.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.955][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:07.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:07.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:07.956][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:07.956][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:07.956][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:07.958][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:07.958][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:07.959][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:07.959][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:07.959][private$loadEntries] Creating entries from ids [1]: "15442".
biodb.DEBUG[2025-08-31 18:25:07.960][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-31 18:25:07.960][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-31 18:25:07.962][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15442.xml.
biodb.DEBUG[2025-08-31 18:25:07.962][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-31 18:25:07.963][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-31 18:25:07.963][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-31 18:25:07.963][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:07.964][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:07.964][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:07.968][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:07.969][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:07.969][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:07.969][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:07.970][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:07.970][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:07.971][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.971][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.971][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:07.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:07.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.973][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 18:25:07.973][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 18:25:07.973][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.973][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.974][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 18:25:07.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 18:25:07.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.975][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 18:25:07.975][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 18:25:07.975][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.976][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.976][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 18:25:07.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 18:25:07.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.977][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 18:25:07.977][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 18:25:07.978][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.978][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.978][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 18:25:07.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 18:25:07.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.980][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 18:25:07.980][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 18:25:07.980][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.980][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.981][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 18:25:07.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 18:25:07.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.982][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-31 18:25:07.982][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-31 18:25:07.982][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.983][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.983][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-31 18:25:07.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-31 18:25:07.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.984][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 18:25:07.984][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:07.985][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.985][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.985][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 18:25:07.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:07.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.986][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:07.986][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:07.987][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.987][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.987][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:07.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:07.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.988][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-31 18:25:07.989][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 18:25:07.989][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.989][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.990][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-31 18:25:07.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 18:25:07.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.991][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 18:25:07.991][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 18:25:07.991][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.992][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.992][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 18:25:07.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 18:25:07.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.993][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 18:25:07.993][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 18:25:07.994][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.994][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.994][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 18:25:07.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 18:25:07.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.995][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:07.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:07.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.996][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:07.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:07.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.997][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:07.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:07.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:07.999][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:07.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:07.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:07.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.000][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.001][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.002][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.006][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.008][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.009][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:08.010][self$createEntryFromContent] Accession numbers: 15442.
biodb.TRACE[2025-08-31 18:25:08.010][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.011][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.012][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:08.014][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:08.014][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:08.014][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:08.016][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:08.017][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:08.017][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:08.017][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:08.018][private$loadEntries] Creating entries from ids [1]: "57310".
biodb.DEBUG[2025-08-31 18:25:08.018][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-31 18:25:08.018][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-31 18:25:08.020][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/57310.xml.
biodb.DEBUG[2025-08-31 18:25:08.020][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-31 18:25:08.021][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-31 18:25:08.021][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-31 18:25:08.022][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:08.022][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:08.022][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:08.024][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:08.024][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:08.025][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:08.025][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:08.026][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.026][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.027][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.027][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.027][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.028][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 18:25:08.029][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 18:25:08.029][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.029][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.030][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 18:25:08.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 18:25:08.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.031][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 18:25:08.031][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 18:25:08.032][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.032][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.032][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 18:25:08.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 18:25:08.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.034][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 18:25:08.034][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 18:25:08.034][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.034][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.035][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 18:25:08.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 18:25:08.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.036][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 18:25:08.036][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 18:25:08.036][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.037][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.037][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 18:25:08.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 18:25:08.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.038][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-31 18:25:08.038][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-31 18:25:08.039][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.039][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.039][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 18:25:08.039][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.040][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.040][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.040][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 18:25:08.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.041][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:08.042][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:08.042][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.042][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.043][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:08.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:08.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.044][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-31 18:25:08.044][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 18:25:08.044][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.047][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.048][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-31 18:25:08.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 18:25:08.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.049][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 18:25:08.049][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 18:25:08.050][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.050][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.050][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 18:25:08.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 18:25:08.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.051][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 18:25:08.052][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 18:25:08.052][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.052][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.053][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 18:25:08.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 18:25:08.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.054][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:08.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:08.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.055][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:08.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:08.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.056][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.057][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:08.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:08.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.058][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.059][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.060][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.062][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.063][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.064][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:08.065][self$createEntryFromContent] Accession numbers: 57310.
biodb.TRACE[2025-08-31 18:25:08.065][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.066][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.067][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:08.069][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:08.069][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:08.069][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:08.071][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:08.072][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:08.072][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:08.072][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:08.072][private$loadEntries] Creating entries from ids [1]: "66216".
biodb.DEBUG[2025-08-31 18:25:08.073][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-31 18:25:08.073][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-31 18:25:08.075][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66216.xml.
biodb.DEBUG[2025-08-31 18:25:08.076][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-31 18:25:08.076][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-31 18:25:08.076][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-31 18:25:08.077][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:08.077][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:08.077][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:08.079][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:08.079][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:08.080][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:08.080][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[2025-08-31 18:25:08.081][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.081][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.082][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.082][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.082][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.083][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 18:25:08.084][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 18:25:08.084][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.084][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.085][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 18:25:08.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 18:25:08.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.086][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 18:25:08.095][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 18:25:08.095][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.096][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.096][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 18:25:08.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 18:25:08.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.097][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 18:25:08.098][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 18:25:08.098][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.098][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.099][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 18:25:08.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 18:25:08.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.100][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 18:25:08.100][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 18:25:08.101][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.101][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.101][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 18:25:08.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 18:25:08.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.102][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-31 18:25:08.103][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-31 18:25:08.103][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.103][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.103][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 18:25:08.104][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.104][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.104][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.105][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 18:25:08.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.106][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:08.106][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:08.106][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.107][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.107][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:08.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:08.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.108][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-31 18:25:08.108][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 18:25:08.109][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.109][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.109][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-31 18:25:08.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 18:25:08.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.110][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 18:25:08.111][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 18:25:08.111][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.111][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.111][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 18:25:08.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 18:25:08.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.113][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 18:25:08.113][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 18:25:08.113][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.113][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.114][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 18:25:08.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 18:25:08.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.115][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:08.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:08.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.117][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:08.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:08.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.118][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.119][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:08.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:08.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.120][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.121][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.122][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.123][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.124][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.125][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:08.126][self$createEntryFromContent] Accession numbers: 66216.
biodb.TRACE[2025-08-31 18:25:08.127][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.128][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.129][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:08.130][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:08.130][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:08.130][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:08.135][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:08.135][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:08.136][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:08.136][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:08.136][private$loadEntries] Creating entries from ids [1]: "70860".
biodb.DEBUG[2025-08-31 18:25:08.136][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-31 18:25:08.137][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-31 18:25:08.138][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70860.xml.
biodb.DEBUG[2025-08-31 18:25:08.139][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-31 18:25:08.139][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-31 18:25:08.139][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-31 18:25:08.140][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:08.140][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:08.141][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:08.142][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:08.142][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:08.143][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:08.143][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:08.144][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.144][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.144][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.145][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.145][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.146][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 18:25:08.146][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 18:25:08.147][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.147][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.147][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 18:25:08.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 18:25:08.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.148][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 18:25:08.149][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 18:25:08.149][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.149][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.149][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 18:25:08.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 18:25:08.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.151][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 18:25:08.151][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 18:25:08.151][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.151][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.152][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 18:25:08.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 18:25:08.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.153][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 18:25:08.153][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 18:25:08.153][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.153][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.154][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 18:25:08.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 18:25:08.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.155][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-31 18:25:08.155][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-31 18:25:08.155][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.156][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.156][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 18:25:08.156][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.157][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.157][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.157][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 18:25:08.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.158][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:08.159][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:08.159][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.159][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.159][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:08.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:08.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.160][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-31 18:25:08.161][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 18:25:08.161][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.161][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.162][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-31 18:25:08.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 18:25:08.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.163][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 18:25:08.163][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 18:25:08.163][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.163][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.164][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 18:25:08.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 18:25:08.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.165][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 18:25:08.165][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 18:25:08.165][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.166][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.166][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 18:25:08.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 18:25:08.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.167][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:08.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:08.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.168][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:08.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:08.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.169][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.173][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:08.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:08.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.174][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.175][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.176][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.178][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.179][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.180][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:08.181][self$createEntryFromContent] Accession numbers: 70860.
biodb.TRACE[2025-08-31 18:25:08.181][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.182][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.183][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:08.184][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:08.185][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:08.185][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:08.187][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:08.187][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:08.187][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:08.187][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:08.188][private$loadEntries] Creating entries from ids [1]: "70861".
biodb.DEBUG[2025-08-31 18:25:08.188][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-31 18:25:08.189][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-31 18:25:08.190][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70861.xml.
biodb.DEBUG[2025-08-31 18:25:08.190][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-31 18:25:08.191][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-31 18:25:08.191][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-31 18:25:08.191][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:08.192][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:08.192][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:08.194][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:08.194][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:08.194][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:08.195][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:08.195][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.196][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.196][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.196][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.197][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.198][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 18:25:08.198][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 18:25:08.198][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.198][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.199][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 18:25:08.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 18:25:08.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.200][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 18:25:08.200][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 18:25:08.201][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.201][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.201][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 18:25:08.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 18:25:08.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.202][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 18:25:08.202][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 18:25:08.203][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.203][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.203][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 18:25:08.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 18:25:08.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.204][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 18:25:08.205][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 18:25:08.205][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.205][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.205][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 18:25:08.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 18:25:08.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.207][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-31 18:25:08.207][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-31 18:25:08.207][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.207][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.208][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 18:25:08.208][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.208][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.209][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.209][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 18:25:08.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.213][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:08.213][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:08.214][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.214][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.215][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:08.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:08.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.216][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-31 18:25:08.216][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 18:25:08.217][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.217][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.217][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-31 18:25:08.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 18:25:08.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.219][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 18:25:08.219][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 18:25:08.219][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.219][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.220][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 18:25:08.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 18:25:08.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.221][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 18:25:08.221][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 18:25:08.221][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.222][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.222][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 18:25:08.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 18:25:08.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.223][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:08.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:08.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.224][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:08.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:08.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.225][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.226][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:08.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:08.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.228][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.229][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.230][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.231][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.232][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.233][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:08.234][self$createEntryFromContent] Accession numbers: 70861.
biodb.TRACE[2025-08-31 18:25:08.234][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.235][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.237][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:08.238][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:08.238][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:08.238][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:08.240][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:08.240][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:08.241][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:08.241][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:08.241][private$loadEntries] Creating entries from ids [1]: "78662".
biodb.DEBUG[2025-08-31 18:25:08.242][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-31 18:25:08.242][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-31 18:25:08.243][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/78662.xml.
biodb.DEBUG[2025-08-31 18:25:08.244][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-31 18:25:08.244][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-31 18:25:08.245][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-31 18:25:08.245][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:08.245][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:08.246][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:08.247][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:08.248][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:08.248][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:08.248][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:08.249][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.249][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.250][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.250][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.250][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.254][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 18:25:08.255][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 18:25:08.255][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.256][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.256][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 18:25:08.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 18:25:08.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.257][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 18:25:08.258][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 18:25:08.258][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.258][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.259][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 18:25:08.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 18:25:08.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.260][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 18:25:08.260][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 18:25:08.260][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.261][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.261][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 18:25:08.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 18:25:08.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.262][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 18:25:08.262][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 18:25:08.263][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.263][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.263][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 18:25:08.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 18:25:08.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.264][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-31 18:25:08.292][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-31 18:25:08.292][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.292][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.293][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 18:25:08.293][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.293][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.294][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.294][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 18:25:08.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.295][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:08.296][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:08.296][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.296][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.296][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:08.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:08.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.297][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-31 18:25:08.298][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 18:25:08.298][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.298][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.299][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-31 18:25:08.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 18:25:08.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.300][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 18:25:08.300][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 18:25:08.300][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.301][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.301][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 18:25:08.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 18:25:08.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.302][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 18:25:08.302][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 18:25:08.302][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.303][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.303][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 18:25:08.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 18:25:08.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.304][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:08.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:08.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.305][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:08.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:08.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.306][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.307][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:08.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:08.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.308][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.309][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.310][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.312][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.313][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.314][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:08.315][self$createEntryFromContent] Accession numbers: 78662.
biodb.TRACE[2025-08-31 18:25:08.315][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.316][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.320][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:08.321][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:08.321][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:08.322][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:08.324][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:08.324][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:08.324][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:08.324][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:08.325][private$loadEntries] Creating entries from ids [1]: "85084".
biodb.DEBUG[2025-08-31 18:25:08.325][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-31 18:25:08.325][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-31 18:25:08.327][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85084.xml.
biodb.DEBUG[2025-08-31 18:25:08.327][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-31 18:25:08.327][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-31 18:25:08.328][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-31 18:25:08.328][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:08.328][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:08.329][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:08.330][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:08.331][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:08.331][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:08.331][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:08.332][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.333][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.333][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.333][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.333][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.335][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 18:25:08.335][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 18:25:08.335][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.335][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.336][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 18:25:08.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 18:25:08.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.337][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 18:25:08.337][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 18:25:08.337][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.338][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.338][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 18:25:08.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 18:25:08.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.339][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 18:25:08.339][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 18:25:08.340][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.340][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.340][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 18:25:08.340][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 18:25:08.341][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.341][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.341][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-31 18:25:08.342][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-31 18:25:08.342][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.342][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.342][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 18:25:08.343][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.343][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.343][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.343][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 18:25:08.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.345][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:08.345][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:08.345][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.345][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.346][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:08.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:08.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.347][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-31 18:25:08.347][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 18:25:08.347][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.348][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.348][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-31 18:25:08.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 18:25:08.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.349][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 18:25:08.349][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 18:25:08.349][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.350][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.350][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 18:25:08.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 18:25:08.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.351][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 18:25:08.351][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 18:25:08.352][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.352][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.352][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:08.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:08.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.353][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:08.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:08.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.354][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.355][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:08.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:08.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.359][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.360][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.362][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.363][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.364][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.365][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:08.366][self$createEntryFromContent] Accession numbers: 85084.
biodb.TRACE[2025-08-31 18:25:08.366][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.367][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.368][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:08.369][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:08.370][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:08.370][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:08.372][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:08.372][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:08.372][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:08.372][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:08.373][private$loadEntries] Creating entries from ids [1]: "85086".
biodb.DEBUG[2025-08-31 18:25:08.373][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-31 18:25:08.374][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-31 18:25:08.375][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85086.xml.
biodb.DEBUG[2025-08-31 18:25:08.375][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-31 18:25:08.376][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-31 18:25:08.376][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-31 18:25:08.377][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:08.377][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:08.377][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:08.379][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:08.379][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:08.380][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:08.380][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:08.381][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.381][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.381][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.381][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.382][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.383][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 18:25:08.383][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 18:25:08.383][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.384][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.384][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 18:25:08.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 18:25:08.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.385][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 18:25:08.385][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 18:25:08.386][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.386][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.386][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 18:25:08.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 18:25:08.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.387][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 18:25:08.388][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 18:25:08.388][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.388][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.388][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 18:25:08.389][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 18:25:08.389][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.389][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.389][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-31 18:25:08.390][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-31 18:25:08.390][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.390][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.391][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 18:25:08.391][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.391][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.391][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.392][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 18:25:08.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.393][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:08.393][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:08.393][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.394][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.394][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:08.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:08.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.395][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-31 18:25:08.398][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 18:25:08.398][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.398][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.399][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-31 18:25:08.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 18:25:08.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.400][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 18:25:08.400][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 18:25:08.401][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.401][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.401][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 18:25:08.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 18:25:08.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.402][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 18:25:08.403][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 18:25:08.403][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.403][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.403][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:08.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:08.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.405][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:08.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:08.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.406][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.407][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:08.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:08.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.408][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.409][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.410][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.411][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.412][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.413][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:08.414][self$createEntryFromContent] Accession numbers: 85086.
biodb.TRACE[2025-08-31 18:25:08.414][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.415][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.416][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:08.417][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:08.418][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:08.418][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:08.420][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:08.420][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:08.420][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:08.420][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:08.421][private$loadEntries] Creating entries from ids [1]: "88123".
biodb.DEBUG[2025-08-31 18:25:08.421][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-31 18:25:08.422][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-31 18:25:08.423][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/88123.xml.
biodb.DEBUG[2025-08-31 18:25:08.423][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-31 18:25:08.424][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-31 18:25:08.424][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-31 18:25:08.424][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:08.425][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:08.425][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:08.427][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:08.427][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:08.427][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:08.427][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:08.428][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.429][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.429][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.429][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.429][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.431][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 18:25:08.431][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 18:25:08.431][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.431][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.432][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 18:25:08.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 18:25:08.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.433][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 18:25:08.433][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 18:25:08.433][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.434][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.437][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 18:25:08.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 18:25:08.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.439][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 18:25:08.439][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 18:25:08.439][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.439][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.440][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 18:25:08.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 18:25:08.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.441][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 18:25:08.441][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 18:25:08.442][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.442][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.442][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 18:25:08.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 18:25:08.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.444][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-31 18:25:08.444][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-31 18:25:08.444][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.444][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.445][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 18:25:08.445][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.445][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.446][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.446][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 18:25:08.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.447][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:08.447][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:08.448][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.448][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.448][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:08.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:08.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.450][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-31 18:25:08.450][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 18:25:08.450][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.451][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.451][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-31 18:25:08.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 18:25:08.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.452][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 18:25:08.452][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 18:25:08.453][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.453][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.453][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 18:25:08.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 18:25:08.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.454][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 18:25:08.455][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 18:25:08.455][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.455][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.456][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 18:25:08.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 18:25:08.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.457][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:08.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:08.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.458][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:08.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:08.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.459][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.460][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:08.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:08.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.461][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.463][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.464][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.465][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.466][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.467][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:08.468][self$createEntryFromContent] Accession numbers: 88123.
biodb.TRACE[2025-08-31 18:25:08.468][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.469][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.470][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:08.472][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:08.472][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:08.472][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:08.477][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:08.478][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:08.478][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:08.479][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:08.479][private$loadEntries] Creating entries from ids [1]: "134117".
biodb.DEBUG[2025-08-31 18:25:08.479][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-31 18:25:08.480][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-31 18:25:08.482][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/134117.xml.
biodb.DEBUG[2025-08-31 18:25:08.482][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-31 18:25:08.482][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-31 18:25:08.483][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-31 18:25:08.483][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:08.484][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:08.484][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:08.486][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:08.486][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:08.486][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:08.487][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:08.488][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.488][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.488][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.488][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.489][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.490][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 18:25:08.490][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 18:25:08.490][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.491][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.491][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 18:25:08.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 18:25:08.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.492][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 18:25:08.493][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 18:25:08.493][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.493][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.493][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 18:25:08.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 18:25:08.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.494][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 18:25:08.495][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 18:25:08.495][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.495][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.496][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 18:25:08.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 18:25:08.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.497][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 18:25:08.497][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 18:25:08.497][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.497][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.498][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 18:25:08.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 18:25:08.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.499][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-31 18:25:08.499][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-31 18:25:08.499][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.500][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.500][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 18:25:08.500][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.501][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.501][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.501][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 18:25:08.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.502][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:08.503][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:08.503][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.503][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.503][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:08.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:08.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.505][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-31 18:25:08.505][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 18:25:08.505][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.505][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.506][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-31 18:25:08.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 18:25:08.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.507][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 18:25:08.507][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 18:25:08.508][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.508][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.508][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 18:25:08.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 18:25:08.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.509][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 18:25:08.510][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 18:25:08.510][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.510][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.510][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 18:25:08.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 18:25:08.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.511][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:08.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:08.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.513][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:08.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:08.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.514][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.517][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:08.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:08.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.519][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.520][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.521][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.522][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.523][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.524][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:08.526][self$createEntryFromContent] Accession numbers: 134117.
biodb.TRACE[2025-08-31 18:25:08.526][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.527][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.528][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:08.529][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:08.529][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:08.530][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:08.532][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:08.532][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:08.533][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:08.533][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:08.533][private$loadEntries] Creating entries from ids [1]: "138307".
biodb.DEBUG[2025-08-31 18:25:08.533][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-31 18:25:08.534][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-31 18:25:08.536][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/138307.xml.
biodb.DEBUG[2025-08-31 18:25:08.536][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-31 18:25:08.536][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-31 18:25:08.537][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-31 18:25:08.537][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:08.538][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:08.538][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:08.540][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:08.540][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:08.540][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:08.541][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.TRACE[2025-08-31 18:25:08.541][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.542][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.542][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.542][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.543][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.544][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 18:25:08.544][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 18:25:08.544][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.545][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.545][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 18:25:08.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 18:25:08.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.546][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 18:25:08.546][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 18:25:08.547][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.547][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.547][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 18:25:08.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 18:25:08.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.548][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 18:25:08.549][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 18:25:08.549][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.549][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.549][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 18:25:08.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 18:25:08.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.551][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 18:25:08.551][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 18:25:08.551][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.551][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.552][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 18:25:08.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 18:25:08.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.553][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-31 18:25:08.553][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-31 18:25:08.553][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.554][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.554][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 18:25:08.554][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.555][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.555][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.555][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 18:25:08.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.560][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:08.560][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:08.561][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.561][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.561][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:08.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:08.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.563][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-31 18:25:08.563][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 18:25:08.563][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.563][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.564][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-31 18:25:08.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 18:25:08.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.565][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 18:25:08.565][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 18:25:08.566][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.566][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.566][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 18:25:08.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 18:25:08.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.567][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 18:25:08.568][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 18:25:08.568][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.568][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.568][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 18:25:08.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 18:25:08.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.570][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:08.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:08.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.571][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:08.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:08.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.572][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.573][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:08.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:08.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.574][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.575][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.576][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.577][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.578][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.579][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:08.580][self$createEntryFromContent] Accession numbers: 138307.
biodb.TRACE[2025-08-31 18:25:08.581][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.582][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.583][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:08.584][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:08.584][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:08.584][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:08.587][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:08.587][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:08.587][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:08.587][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:08.588][private$loadEntries] Creating entries from ids [1]: "176803".
biodb.DEBUG[2025-08-31 18:25:08.588][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-31 18:25:08.589][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-31 18:25:08.591][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176803.xml.
biodb.DEBUG[2025-08-31 18:25:08.591][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-31 18:25:08.591][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-31 18:25:08.592][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-31 18:25:08.592][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:08.593][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:08.593][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:08.595][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:08.595][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:08.596][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:08.596][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:08.597][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.597][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.598][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.598][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.598][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.603][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 18:25:08.603][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 18:25:08.604][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.604][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.604][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 18:25:08.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 18:25:08.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.605][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 18:25:08.606][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 18:25:08.606][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.606][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.607][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 18:25:08.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 18:25:08.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.608][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 18:25:08.608][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 18:25:08.608][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.609][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.609][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 18:25:08.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 18:25:08.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.610][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 18:25:08.610][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 18:25:08.611][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.611][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.611][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 18:25:08.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 18:25:08.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.612][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-31 18:25:08.613][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-31 18:25:08.613][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.613][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.613][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 18:25:08.614][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.614][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.614][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.614][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 18:25:08.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.616][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:08.616][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:08.616][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.616][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.617][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:08.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:08.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.618][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-31 18:25:08.618][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 18:25:08.618][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.618][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.619][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-31 18:25:08.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 18:25:08.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.620][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 18:25:08.620][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 18:25:08.620][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.621][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.621][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 18:25:08.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 18:25:08.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.622][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 18:25:08.622][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 18:25:08.623][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.623][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.623][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 18:25:08.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 18:25:08.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.624][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:08.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:08.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.625][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:08.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:08.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.626][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.627][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:08.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:08.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.629][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.630][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.631][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.632][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.633][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.634][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:08.635][self$createEntryFromContent] Accession numbers: 176803.
biodb.TRACE[2025-08-31 18:25:08.635][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.639][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.640][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:08.641][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:08.642][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:08.642][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:08.644][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:08.644][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:08.644][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:08.644][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:08.645][private$loadEntries] Creating entries from ids [1]: "176962".
biodb.DEBUG[2025-08-31 18:25:08.645][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-31 18:25:08.646][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-31 18:25:08.648][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176962.xml.
biodb.DEBUG[2025-08-31 18:25:08.648][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-31 18:25:08.648][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-31 18:25:08.649][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-31 18:25:08.649][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:08.649][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:08.650][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:08.651][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:08.652][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:08.652][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:08.652][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:08.653][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.653][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.654][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.654][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.654][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.655][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 18:25:08.656][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 18:25:08.656][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.656][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.657][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 18:25:08.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 18:25:08.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.658][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 18:25:08.658][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 18:25:08.658][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.659][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.659][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 18:25:08.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 18:25:08.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.660][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 18:25:08.660][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 18:25:08.661][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.661][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.661][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 18:25:08.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 18:25:08.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.662][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 18:25:08.663][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 18:25:08.663][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.663][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.663][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 18:25:08.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 18:25:08.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.665][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-31 18:25:08.665][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-31 18:25:08.665][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.665][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.666][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 18:25:08.666][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.666][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.666][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.667][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 18:25:08.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.668][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:08.668][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:08.668][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.669][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.669][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:08.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:08.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.670][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-31 18:25:08.670][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 18:25:08.671][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.671][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.671][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-31 18:25:08.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 18:25:08.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.672][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 18:25:08.673][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 18:25:08.673][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.673][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.673][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 18:25:08.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 18:25:08.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.674][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 18:25:08.675][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 18:25:08.675][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.675][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.679][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 18:25:08.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 18:25:08.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.681][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:08.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:08.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.682][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:08.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:08.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.683][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.684][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:08.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:08.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.685][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.686][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.687][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.689][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.690][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.691][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:08.692][self$createEntryFromContent] Accession numbers: 176962.
biodb.TRACE[2025-08-31 18:25:08.692][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.693][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.694][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:08.695][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:08.695][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:08.696][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:08.698][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:08.698][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:08.698][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:08.699][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:08.699][private$loadEntries] Creating entries from ids [1]: "198655".
biodb.DEBUG[2025-08-31 18:25:08.699][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-31 18:25:08.700][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-31 18:25:08.702][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/198655.xml.
biodb.DEBUG[2025-08-31 18:25:08.702][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-31 18:25:08.702][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-31 18:25:08.703][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-31 18:25:08.703][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:08.704][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:08.704][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:08.706][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:08.706][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:08.706][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:08.707][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:08.707][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.708][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.708][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.708][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.709][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.710][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 18:25:08.710][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 18:25:08.710][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.710][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.711][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 18:25:08.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 18:25:08.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.712][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 18:25:08.712][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 18:25:08.712][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.713][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.713][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 18:25:08.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 18:25:08.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.714][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 18:25:08.715][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 18:25:08.715][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.715][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.715][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 18:25:08.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 18:25:08.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.717][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 18:25:08.717][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 18:25:08.721][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.721][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.722][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 18:25:08.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 18:25:08.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.723][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-31 18:25:08.724][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-31 18:25:08.724][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.724][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.725][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 18:25:08.725][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.725][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.726][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.726][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 18:25:08.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.727][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:08.728][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:08.728][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.728][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.728][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:08.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:08.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.730][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-31 18:25:08.730][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 18:25:08.730][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.730][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.731][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-31 18:25:08.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 18:25:08.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.732][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 18:25:08.732][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 18:25:08.733][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.733][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.733][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 18:25:08.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 18:25:08.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.734][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 18:25:08.734][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 18:25:08.735][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.735][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.735][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 18:25:08.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 18:25:08.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.736][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:08.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:08.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.737][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:08.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:08.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.738][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.739][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:08.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:08.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.740][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.741][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.742][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.744][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.745][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.746][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:08.747][self$createEntryFromContent] Accession numbers: 198655.
biodb.TRACE[2025-08-31 18:25:08.747][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.748][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.749][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:08.750][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:08.750][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:08.751][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:08.752][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:08.753][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:08.753][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:08.753][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:08.753][private$loadEntries] Creating entries from ids [1]: "215045".
biodb.DEBUG[2025-08-31 18:25:08.754][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-31 18:25:08.754][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-31 18:25:08.756][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/215045.xml.
biodb.DEBUG[2025-08-31 18:25:08.756][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-31 18:25:08.756][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-31 18:25:08.759][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-31 18:25:08.760][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:08.760][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:08.760][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:08.762][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:08.762][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:08.763][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:08.763][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:08.764][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.764][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.764][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.764][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.765][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.766][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 18:25:08.766][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 18:25:08.767][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.767][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.767][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 18:25:08.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 18:25:08.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.768][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 18:25:08.768][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 18:25:08.769][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.769][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.769][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 18:25:08.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 18:25:08.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.770][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 18:25:08.771][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 18:25:08.771][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.771][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.772][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 18:25:08.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 18:25:08.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.773][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 18:25:08.773][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 18:25:08.773][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.773][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.774][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 18:25:08.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 18:25:08.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.775][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-31 18:25:08.775][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-31 18:25:08.775][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.776][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.776][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 18:25:08.776][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.776][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.777][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.777][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 18:25:08.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.778][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:08.778][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:08.779][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.779][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.779][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:08.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:08.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.780][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-31 18:25:08.780][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 18:25:08.781][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.781][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.781][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-31 18:25:08.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 18:25:08.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.782][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 18:25:08.783][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 18:25:08.783][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.783][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.783][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 18:25:08.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 18:25:08.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.785][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 18:25:08.785][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 18:25:08.785][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.785][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.786][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 18:25:08.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 18:25:08.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.787][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:08.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:08.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.788][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:08.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:08.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.789][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.790][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:08.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:08.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.791][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.792][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.795][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.797][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.798][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.799][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:08.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:08.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:08.800][self$createEntryFromContent] Accession numbers: 215045.
biodb.TRACE[2025-08-31 18:25:08.800][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.801][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.803][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-08-31 18:25:08.809][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-08-31 18:25:08.810][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-31 18:25:08.811][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-08-31 18:25:08.812][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-31 18:25:08.813][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:08.813][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:08.813][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:08.815][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:08.815][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:08.815][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:08.816][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:08.816][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.817][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.818][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:08.819][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:08.820][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:08.820][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:08.821][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:08.822][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:08.822][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:08.822][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:08.822][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.824][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.825][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.826][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.827][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:08.828][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:08.828][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:08.828][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:08.830][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:08.830][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:08.830][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:08.831][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:08.831][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.832][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.836][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.837][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.838][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:08.839][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:08.839][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:08.840][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:08.841][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:08.842][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:08.842][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:08.842][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:08.842][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.843][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.845][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.846][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.847][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:08.848][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:08.848][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:08.848][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:08.850][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:08.850][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:08.850][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:08.850][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:08.851][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.852][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.853][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:08.854][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:08.854][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:08.854][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:08.856][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:08.856][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:08.856][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:08.857][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:08.857][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.858][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.859][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:08.860][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:08.860][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:08.861][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:08.862][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:08.863][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:08.863][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:08.863][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:08.863][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.864][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.865][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:08.867][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:08.867][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:08.867][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:08.869][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:08.869][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:08.869][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:08.869][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:08.870][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.874][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.875][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:08.876][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:08.876][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:08.877][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:08.878][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:08.879][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:08.879][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:08.879][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:08.880][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.881][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.882][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:08.883][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:08.883][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:08.883][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:08.885][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:08.885][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:08.886][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:08.886][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:08.886][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.887][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.889][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:08.890][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:08.890][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:08.890][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:08.892][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:08.892][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:08.892][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:08.893][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:08.893][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.894][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.895][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:08.896][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:08.896][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:08.897][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:08.898][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:08.898][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:08.899][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:08.899][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:08.899][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.900][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.901][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:08.903][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:08.903][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:08.903][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:08.905][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:08.905][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:08.905][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:08.906][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:08.906][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.907][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.908][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:08.909][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:08.909][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:08.912][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:08.914][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:08.915][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:08.915][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:08.915][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:08.915][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.917][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.918][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:08.919][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:08.919][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:08.919][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:08.921][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:08.921][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:08.921][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:08.922][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:08.922][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.923][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.925][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:08.926][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:08.926][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:08.927][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:08.928][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:08.929][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:08.929][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:08.929][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:08.929][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.931][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.932][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:08.933][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:08.933][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:08.933][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:08.935][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:08.935][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:08.935][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:08.936][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:08.936][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.937][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.938][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:08.939][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:08.940][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:08.940][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:08.941][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:08.942][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:08.942][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:08.942][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:08.942][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.944][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.945][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:08.946][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:08.946][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:08.946][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:08.948][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:08.948][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:08.948][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:08.948][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:08.949][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.954][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.956][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:08.957][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:08.957][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:08.958][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:08.959][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:08.960][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:08.960][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:08.960][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:08.961][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.962][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.964][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:08.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.969][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:08.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:08.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.971][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:08.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:08.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.972][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:08.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:08.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.973][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:08.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:08.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:08.974][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:08.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:08.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:08.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-08-31 18:25:08.984][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-08-31 18:25:08.985][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-31 18:25:08.985][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/63dc67d905e130c19900bd338bad7ba9.content.
sched.DEBUG[2025-08-31 18:25:08.986][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-08-31 18:25:08.987][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39125*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-08-31 18:25:08.988][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-31 18:25:08.989][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/287cac4c6e727656d926f26e3952924c.content.
sched.DEBUG[2025-08-31 18:25:08.989][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-31 18:25:08.990][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:08.990][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:08.990][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:08.992][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:08.992][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:08.993][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:08.993][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:08.993][private$loadEntries] Creating entries from ids [1]: "4648".
biodb.DEBUG[2025-08-31 18:25:08.994][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-31 18:25:08.994][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-31 18:25:08.998][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4648.xml.
biodb.DEBUG[2025-08-31 18:25:08.999][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-31 18:25:08.999][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-31 18:25:09.000][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-31 18:25:09.000][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:09.001][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:09.001][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:09.003][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:09.003][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:09.003][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:09.004][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:09.005][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:09.005][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:09.005][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.005][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.006][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:09.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:09.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.007][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 18:25:09.007][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 18:25:09.007][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.008][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.008][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 18:25:09.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 18:25:09.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.009][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 18:25:09.009][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 18:25:09.010][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.010][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.010][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 18:25:09.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 18:25:09.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.011][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 18:25:09.012][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 18:25:09.012][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.012][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.012][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 18:25:09.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 18:25:09.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.014][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 18:25:09.014][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 18:25:09.014][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.014][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.015][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 18:25:09.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 18:25:09.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.016][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-31 18:25:09.016][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-31 18:25:09.016][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.016][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.017][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-31 18:25:09.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-31 18:25:09.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.018][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 18:25:09.018][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:09.018][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.019][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.019][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 18:25:09.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:09.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.020][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.020][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.020][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.021][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.021][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.022][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-31 18:25:09.022][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 18:25:09.023][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.023][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.023][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-31 18:25:09.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 18:25:09.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.024][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 18:25:09.025][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 18:25:09.025][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.025][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.025][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 18:25:09.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 18:25:09.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.026][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 18:25:09.027][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 18:25:09.027][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.027][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.027][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 18:25:09.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 18:25:09.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.029][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.030][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.031][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:09.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:09.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.032][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.033][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:09.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:09.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.037][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:09.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:09.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.038][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:09.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:09.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.040][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:09.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:09.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.041][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:09.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:09.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.042][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:09.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:09.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:09.043][self$createEntryFromContent] Accession numbers: 4648.
biodb.TRACE[2025-08-31 18:25:09.043][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.044][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.045][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:09.046][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:09.047][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:09.047][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:09.049][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:09.049][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:09.049][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:09.050][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:09.050][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.051][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.052][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:09.054][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:09.054][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:09.054][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:09.056][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:09.056][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:09.057][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:09.057][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:09.057][private$loadEntries] Creating entries from ids [1]: "62447".
biodb.DEBUG[2025-08-31 18:25:09.058][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-31 18:25:09.058][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-31 18:25:09.059][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62447.xml.
biodb.DEBUG[2025-08-31 18:25:09.060][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-31 18:25:09.060][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-31 18:25:09.061][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-31 18:25:09.061][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:09.061][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:09.062][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:09.063][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:09.063][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:09.064][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:09.064][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:09.065][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:09.065][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:09.065][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.066][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.066][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:09.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:09.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.067][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 18:25:09.067][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 18:25:09.068][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.068][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.068][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 18:25:09.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 18:25:09.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.069][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 18:25:09.069][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 18:25:09.070][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.070][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.070][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 18:25:09.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 18:25:09.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.071][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 18:25:09.072][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 18:25:09.072][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.072][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.072][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 18:25:09.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 18:25:09.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.074][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 18:25:09.074][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 18:25:09.077][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.077][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.078][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 18:25:09.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 18:25:09.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.080][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-31 18:25:09.080][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-31 18:25:09.080][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.081][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.081][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 18:25:09.081][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:09.082][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.082][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.082][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 18:25:09.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:09.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.083][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.084][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.084][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.084][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.085][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.086][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-31 18:25:09.086][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 18:25:09.087][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.087][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.087][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-31 18:25:09.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 18:25:09.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.089][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 18:25:09.089][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 18:25:09.089][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.089][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.090][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 18:25:09.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 18:25:09.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.091][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 18:25:09.091][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 18:25:09.091][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.092][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.092][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 18:25:09.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 18:25:09.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.093][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.094][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.095][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:09.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:09.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.096][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.097][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:09.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:09.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.098][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:09.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:09.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.099][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:09.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:09.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.100][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:09.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:09.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.102][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:09.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:09.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.103][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:09.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:09.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:09.104][self$createEntryFromContent] Accession numbers: 62447.
biodb.TRACE[2025-08-31 18:25:09.105][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.106][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.107][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-08-31 18:25:09.114][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-08-31 18:25:09.117][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-31 18:25:09.119][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-08-31 18:25:09.119][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-31 18:25:09.120][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:09.121][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:09.121][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:09.123][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:09.123][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:09.123][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:09.123][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:09.124][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.125][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.126][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:09.127][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:09.127][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:09.128][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:09.129][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:09.129][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:09.130][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:09.130][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:09.130][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.131][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.133][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.134][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.135][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:09.136][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:09.136][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:09.136][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:09.138][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:09.138][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:09.139][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:09.139][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:09.139][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.140][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.141][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.143][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.144][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:09.145][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:09.145][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:09.145][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:09.147][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:09.147][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:09.147][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:09.148][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:09.148][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.149][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.150][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.151][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.152][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:09.153][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:09.154][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:09.154][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:09.158][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:09.158][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:09.159][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:09.159][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:09.160][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.161][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.162][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:09.163][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:09.163][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:09.163][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:09.165][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:09.165][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:09.166][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:09.166][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:09.166][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.167][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.168][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:09.169][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:09.170][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:09.170][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:09.172][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:09.172][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:09.172][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:09.172][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:09.173][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.174][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.175][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:09.177][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:09.177][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:09.177][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:09.179][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:09.179][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:09.179][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:09.179][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:09.180][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.181][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.182][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:09.183][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:09.183][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:09.183][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:09.185][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:09.185][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:09.185][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:09.185][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:09.186][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.187][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.188][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:09.189][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:09.189][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:09.189][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:09.191][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:09.191][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:09.191][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:09.192][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:09.192][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.193][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.197][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:09.199][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:09.199][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:09.200][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:09.201][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:09.202][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:09.202][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:09.202][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:09.202][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.204][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.205][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:09.206][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:09.206][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:09.206][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:09.208][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:09.208][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:09.208][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:09.209][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:09.209][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.210][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.211][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:09.212][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:09.212][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:09.213][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:09.214][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:09.214][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:09.215][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:09.215][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:09.215][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.216][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.217][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:09.218][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:09.219][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:09.219][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:09.220][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:09.221][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:09.221][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:09.221][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:09.222][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.223][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.224][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:09.225][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:09.225][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:09.225][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:09.227][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:09.227][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:09.227][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:09.228][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:09.228][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.229][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.230][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:09.232][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:09.232][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:09.232][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:09.234][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:09.234][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:09.237][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:09.237][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:09.238][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.239][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.240][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:09.241][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:09.241][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:09.242][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:09.243][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:09.244][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:09.244][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:09.244][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:09.244][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.246][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.247][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:09.248][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:09.248][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:09.248][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:09.250][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:09.250][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:09.250][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:09.250][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:09.251][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.252][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.253][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:09.254][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:09.254][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:09.254][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:09.256][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:09.256][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:09.256][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:09.257][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:09.257][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.258][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.259][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:09.260][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:09.260][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:09.261][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:09.262][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:09.263][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:09.263][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:09.263][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:09.263][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.264][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.265][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-08-31 18:25:09.272][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-08-31 18:25:09.273][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-31 18:25:09.276][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-08-31 18:25:09.277][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-31 18:25:09.278][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:09.279][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:09.279][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:09.281][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:09.281][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:09.281][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:09.281][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:09.282][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.283][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.284][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:09.285][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:09.285][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:09.285][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:09.287][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:09.287][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:09.287][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:09.288][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:09.288][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.289][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.290][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.291][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.292][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:09.293][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:09.294][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:09.294][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:09.295][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:09.296][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:09.296][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:09.296][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:09.297][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.298][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.299][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.300][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.301][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:09.302][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:09.302][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:09.303][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:09.304][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:09.305][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:09.305][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:09.305][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:09.306][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.307][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.308][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.309][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.310][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:09.311][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:09.311][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:09.311][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:09.316][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:09.316][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:09.317][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:09.317][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:09.317][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.319][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.320][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:09.321][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:09.321][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:09.321][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:09.323][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:09.323][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:09.324][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:09.324][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:09.324][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.325][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.327][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:09.328][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:09.328][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:09.328][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:09.330][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:09.331][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:09.331][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:09.331][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:09.332][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.333][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.334][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:09.335][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:09.335][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:09.336][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:09.338][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:09.338][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:09.338][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:09.339][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:09.339][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.340][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.341][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:09.342][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:09.343][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:09.343][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:09.345][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:09.346][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:09.346][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:09.346][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:09.347][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.348][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.349][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:09.350][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:09.350][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:09.351][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:09.353][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:09.353][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:09.353][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:09.353][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:09.354][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.355][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.359][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:09.361][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:09.362][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:09.362][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:09.364][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:09.364][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:09.364][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:09.365][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:09.365][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.366][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.367][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:09.368][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:09.369][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:09.369][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:09.370][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:09.371][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:09.371][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:09.371][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:09.372][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.373][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.374][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:09.375][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:09.375][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:09.375][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:09.377][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:09.377][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:09.377][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:09.378][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:09.378][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.379][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.380][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:09.381][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:09.381][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:09.382][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:09.383][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:09.383][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:09.384][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:09.384][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:09.384][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.385][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.386][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:09.388][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:09.388][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:09.388][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:09.390][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:09.390][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:09.390][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:09.390][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:09.391][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.392][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.393][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:09.394][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:09.394][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:09.394][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:09.398][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:09.398][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:09.401][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:09.401][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:09.402][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.403][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.404][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:09.406][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:09.406][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:09.406][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:09.408][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:09.408][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:09.408][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:09.409][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:09.409][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.410][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.411][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:09.412][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:09.413][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:09.413][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:09.414][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:09.415][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:09.415][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:09.415][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:09.415][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.417][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.418][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:09.419][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:09.419][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:09.419][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:09.421][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:09.421][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:09.421][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:09.421][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:09.422][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.423][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.424][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:09.425][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:09.425][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:09.426][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:09.427][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:09.427][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:09.428][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:09.428][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:09.428][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.429][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.430][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.437][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-08-31 18:25:09.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-08-31 18:25:09.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-08-31 18:25:09.444][biodb::testThat]
biodb.INFO [2025-08-31 18:25:09.445][biodb::testThat] Running test function  test_annotateMzValues_input_vector  (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2025-08-31 18:25:09.445][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-31 18:25:09.446][biodb::testThat]
biodb.TRACE[2025-08-31 18:25:09.447][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-31 18:25:09.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-31 18:25:09.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.448][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:09.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:09.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.449][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:09.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:09.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.450][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:09.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:09.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.451][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:09.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:09.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:09.453][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:09.454][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:09.454][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:09.456][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:09.456][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:09.456][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:09.457][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-08-31 18:25:09.457][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-08-31 18:25:09.458][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-31 18:25:09.459][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-08-31 18:25:09.459][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-31 18:25:09.460][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:09.460][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:09.461][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:09.462][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:09.463][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:09.463][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:09.463][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:09.464][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:09.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:09.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.465][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:09.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:09.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.466][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:09.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:09.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-08-31 18:25:09.467][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-08-31 18:25:09.468][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-31 18:25:09.469][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-08-31 18:25:09.469][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-31 18:25:09.472][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:09.472][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:09.472][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:09.474][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:09.474][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:09.474][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:09.475][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:09.475][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:09.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:09.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.477][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:09.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:09.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.478][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:09.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:09.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:09.480][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:09.480][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:09.480][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:09.482][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:09.483][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:09.483][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:09.483][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:09.484][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:09.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:09.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.485][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:09.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:09.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.486][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:09.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:09.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:09.491][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-31 18:25:09.491][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:09.492][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:09.492][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:09.494][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:09.495][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:09.495][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:09.495][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:09.496][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.497][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.498][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 18:25:09.498][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-31 18:25:09.499][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-31 18:25:09.499][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-31 18:25:09.499][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 18:25:09.500][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.500][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.500][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.500][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.501][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.501][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.501][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.502][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.502][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 18:25:09.502][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 18:25:09.502][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.503][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.503][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.503][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.504][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-31 18:25:09.504][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.505][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.507][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.511][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-08-31 18:25:09.511][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:09.511][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:09.512][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:09.514][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:09.514][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:09.514][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:09.514][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.TRACE[2025-08-31 18:25:09.515][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.516][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.517][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 18:25:09.518][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-31 18:25:09.518][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-31 18:25:09.518][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-31 18:25:09.518][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 18:25:09.519][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.519][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.519][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.520][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.520][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.520][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.521][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.521][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.521][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 18:25:09.521][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 18:25:09.522][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.522][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.522][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.522][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.523][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-31 18:25:09.523][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.524][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.526][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.527][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-08-31 18:25:09.527][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:09.528][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:09.528][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:09.533][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:09.534][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:09.534][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:09.535][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:09.535][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.537][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.538][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 18:25:09.538][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-31 18:25:09.539][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-31 18:25:09.539][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-31 18:25:09.539][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 18:25:09.540][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.540][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.540][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.541][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.541][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.541][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.542][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.542][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.542][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 18:25:09.542][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 18:25:09.543][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.543][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.543][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.544][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.544][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-31 18:25:09.544][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.545][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.546][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.548][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-08-31 18:25:09.548][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-31 18:25:09.548][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-08-31 18:25:09.552][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.553][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.554][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.555][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:09.579][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:09.580][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:09.580][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:09.582][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:09.582][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:09.583][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:09.583][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-08-31 18:25:09.584][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-08-31 18:25:09.585][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-31 18:25:09.586][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-08-31 18:25:09.586][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-08-31 18:25:09.587][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-08-31 18:25:09.588][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-31 18:25:09.589][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-08-31 18:25:09.590][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-31 18:25:09.591][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:09.591][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:09.591][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:09.593][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:09.594][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:09.594][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:09.594][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:09.595][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.596][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.597][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:09.599][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:09.599][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:09.599][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:09.601][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:09.602][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:09.602][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:09.602][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:09.602][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.604][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.605][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:09.606][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:09.606][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:09.606][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:09.608][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:09.608][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:09.608][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:09.609][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:09.609][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.610][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.611][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:09.624][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-31 18:25:09.632][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:09.632][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:09.632][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:09.634][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:09.635][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:09.635][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:09.635][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:09.635][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.637][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.638][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 18:25:09.638][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-31 18:25:09.638][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-31 18:25:09.639][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-31 18:25:09.639][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 18:25:09.639][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.640][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.640][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.640][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.640][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.641][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.641][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.641][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.641][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 18:25:09.642][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 18:25:09.642][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.642][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.643][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.643][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.643][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-31 18:25:09.643][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.644][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.645][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.647][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-08-31 18:25:09.647][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:09.647][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:09.647][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:09.649][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:09.649][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:09.650][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:09.650][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:09.657][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.659][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.666][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 18:25:09.667][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-31 18:25:09.667][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-31 18:25:09.667][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-31 18:25:09.667][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 18:25:09.668][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.668][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.668][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.669][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.669][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.669][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.669][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.670][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.670][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 18:25:09.673][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 18:25:09.673][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.674][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.674][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.674][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.675][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-31 18:25:09.675][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.676][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.677][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.679][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-08-31 18:25:09.679][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:09.679][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:09.680][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:09.681][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:09.682][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:09.682][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:09.682][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:09.682][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.683][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.685][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 18:25:09.685][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-31 18:25:09.685][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-31 18:25:09.686][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-31 18:25:09.686][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 18:25:09.686][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.686][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.687][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.687][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.687][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.687][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.690][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.690][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.691][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 18:25:09.691][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 18:25:09.692][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.692][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.692][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.693][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.693][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-31 18:25:09.693][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.694][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.696][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.697][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-08-31 18:25:09.697][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-31 18:25:09.698][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-08-31 18:25:09.701][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-08-31 18:25:09.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-08-31 18:25:09.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-08-31 18:25:09.703][biodb::testThat]
biodb.INFO [2025-08-31 18:25:09.703][biodb::testThat] Running test function  test_annotateMzValues_ppm_tol  (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2025-08-31 18:25:09.704][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-31 18:25:09.704][biodb::testThat]
biodb.TRACE[2025-08-31 18:25:09.705][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-31 18:25:09.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-31 18:25:09.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.706][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:09.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:09.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.707][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:09.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:09.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.708][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:09.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:09.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.709][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:09.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:09.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:09.711][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:09.712][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:09.712][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:09.714][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:09.714][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:09.714][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:09.714][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-08-31 18:25:09.716][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-08-31 18:25:09.716][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-31 18:25:09.717][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-08-31 18:25:09.717][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-31 18:25:09.718][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:09.719][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:09.719][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:09.721][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:09.721][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:09.721][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:09.722][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:09.722][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:09.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:09.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.723][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:09.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:09.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.724][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:09.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:09.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-08-31 18:25:09.726][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-08-31 18:25:09.726][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-31 18:25:09.727][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-08-31 18:25:09.727][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-31 18:25:09.728][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:09.728][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:09.729][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:09.730][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:09.733][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:09.734][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:09.734][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:09.735][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:09.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:09.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.736][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:09.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:09.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.738][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:09.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:09.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:09.739][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:09.739][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:09.740][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:09.742][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:09.742][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:09.742][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:09.742][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:09.743][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:09.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:09.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.744][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:09.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:09.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.745][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:09.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:09.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:09.746][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-31 18:25:09.746][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:09.747][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:09.747][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:09.748][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:09.749][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:09.749][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:09.749][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:09.750][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.751][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.752][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 18:25:09.752][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-31 18:25:09.753][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-31 18:25:09.753][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-31 18:25:09.753][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 18:25:09.754][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.754][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.754][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.754][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.755][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.755][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.755][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.755][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.756][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 18:25:09.756][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 18:25:09.756][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.757][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.757][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.757][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.757][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-31 18:25:09.758][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.759][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.760][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.762][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-08-31 18:25:09.762][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:09.762][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:09.762][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:09.764][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:09.764][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:09.765][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:09.765][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.TRACE[2025-08-31 18:25:09.765][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.766][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.768][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 18:25:09.768][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-31 18:25:09.768][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-31 18:25:09.768][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-31 18:25:09.769][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 18:25:09.769][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.769][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.769][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.770][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.770][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.770][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.773][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.773][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.774][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 18:25:09.774][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 18:25:09.775][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.775][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.775][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.776][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.776][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-31 18:25:09.776][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.777][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.779][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.780][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-08-31 18:25:09.780][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:09.781][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:09.781][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:09.783][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:09.783][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:09.783][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:09.783][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:09.784][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.785][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.786][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 18:25:09.786][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-31 18:25:09.786][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-31 18:25:09.787][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-31 18:25:09.787][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 18:25:09.787][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.788][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.788][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.788][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.788][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.789][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.789][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.789][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.790][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 18:25:09.790][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 18:25:09.790][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.791][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.791][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.791][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.791][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-31 18:25:09.792][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.793][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.794][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.795][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-08-31 18:25:09.795][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-31 18:25:09.796][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-08-31 18:25:09.798][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.800][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.801][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.802][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:09.804][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:09.804][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:09.804][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:09.806][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:09.806][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:09.806][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:09.807][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-08-31 18:25:09.808][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-08-31 18:25:09.808][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-31 18:25:09.809][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-08-31 18:25:09.809][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-08-31 18:25:09.882][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-08-31 18:25:09.883][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-31 18:25:09.884][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-08-31 18:25:09.884][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-31 18:25:09.885][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:09.886][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:09.886][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:09.888][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:09.888][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:09.888][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:09.889][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:09.889][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.890][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.891][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:09.892][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:09.893][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:09.893][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:09.894][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:09.895][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:09.895][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:09.895][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:09.896][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.897][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.898][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:09.899][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:09.899][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:09.900][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:09.901][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:09.901][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:09.902][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:09.902][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:09.902][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.903][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.904][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:09.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:09.905][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-31 18:25:09.906][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:09.906][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:09.906][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:09.908][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:09.908][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:09.909][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:09.909][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:09.909][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.910][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.911][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 18:25:09.912][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-31 18:25:09.912][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-31 18:25:09.912][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-31 18:25:09.912][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 18:25:09.913][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.913][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.913][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.914][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.914][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.914][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.914][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.915][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.915][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 18:25:09.915][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 18:25:09.915][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.916][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.916][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.916][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.916][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-31 18:25:09.917][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.918][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.919][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.920][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-08-31 18:25:09.921][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:09.921][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:09.921][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:09.924][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:09.924][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:09.924][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:09.924][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:09.925][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.926][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.927][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 18:25:09.927][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-31 18:25:09.928][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-31 18:25:09.928][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-31 18:25:09.928][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 18:25:09.929][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.929][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.929][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.929][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.930][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.930][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.930][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.931][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.931][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 18:25:09.931][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 18:25:09.931][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.932][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.932][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.932][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.933][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-31 18:25:09.933][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.934][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.935][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.937][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-08-31 18:25:09.937][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:09.937][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:09.938][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:09.939][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:09.940][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:09.940][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:09.940][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:09.941][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.942][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.943][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 18:25:09.943][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-31 18:25:09.944][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-31 18:25:09.944][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-31 18:25:09.944][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 18:25:09.945][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.945][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.945][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.946][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.946][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.946][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.946][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.947][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.947][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 18:25:09.947][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 18:25:09.948][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.948][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.948][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.948][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.949][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-31 18:25:09.949][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.950][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.952][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:09.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.953][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-08-31 18:25:09.953][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-31 18:25:09.953][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-08-31 18:25:09.957][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-08-31 18:25:09.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-08-31 18:25:09.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-08-31 18:25:09.959][biodb::testThat]
biodb.INFO [2025-08-31 18:25:09.959][biodb::testThat] Running test function  test_annotateMzValues_input_dataframe_untouched  (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2025-08-31 18:25:09.960][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-31 18:25:09.960][biodb::testThat]
biodb.TRACE[2025-08-31 18:25:09.961][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-31 18:25:09.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-31 18:25:09.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.962][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:09.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:09.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.964][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:09.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:09.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.965][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:09.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:09.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.966][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:09.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:09.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:09.969][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:09.969][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:09.969][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:09.971][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:09.971][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:09.971][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:09.972][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-08-31 18:25:09.973][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-08-31 18:25:09.974][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-31 18:25:09.974][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-08-31 18:25:09.975][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-31 18:25:09.976][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:09.976][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:09.976][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:09.978][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:09.978][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:09.978][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:09.981][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:09.981][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:09.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:09.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.982][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:09.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:09.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.984][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:09.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:09.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-08-31 18:25:09.985][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-08-31 18:25:09.986][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-31 18:25:09.986][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-08-31 18:25:09.987][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-31 18:25:09.988][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:09.988][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:09.988][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:09.990][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:09.990][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:09.990][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:09.991][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:09.991][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:09.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:09.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.992][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:09.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:09.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.993][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:09.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:09.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:09.994][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:09.995][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:09.995][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:09.997][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:09.997][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:09.997][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:09.997][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:09.998][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:09.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:09.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:09.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:09.999][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:09.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:09.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.000][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:10.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:10.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:10.001][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-31 18:25:10.001][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:10.002][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:10.002][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:10.004][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.004][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.004][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.004][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:10.005][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.006][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.007][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 18:25:10.007][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-31 18:25:10.007][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-31 18:25:10.008][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-31 18:25:10.008][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 18:25:10.008][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.008][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.009][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.009][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.009][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.009][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.010][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.010][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.010][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 18:25:10.010][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 18:25:10.011][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.011][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.011][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.011][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.012][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-31 18:25:10.012][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.013][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.014][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.016][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-08-31 18:25:10.016][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:10.016][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:10.016][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:10.018][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.018][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.019][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.019][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:10.019][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.020][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.022][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 18:25:10.022][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-31 18:25:10.022][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-31 18:25:10.022][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-31 18:25:10.023][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 18:25:10.023][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.023][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.023][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.024][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.024][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.024][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.025][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.025][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.025][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 18:25:10.025][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 18:25:10.026][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.026][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.026][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.027][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.027][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-31 18:25:10.027][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.028][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.029][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.031][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-08-31 18:25:10.031][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:10.031][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:10.032][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:10.033][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.034][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.034][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.034][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:10.035][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.036][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.037][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 18:25:10.037][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-31 18:25:10.037][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-31 18:25:10.037][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-31 18:25:10.038][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 18:25:10.038][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.038][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.039][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.039][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.039][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.039][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.040][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.040][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.040][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 18:25:10.040][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 18:25:10.041][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.041][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.041][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.041][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.042][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-31 18:25:10.042][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.043][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.044][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.045][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-08-31 18:25:10.045][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-31 18:25:10.046][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-08-31 18:25:10.052][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:10.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:10.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.053][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:10.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:10.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.055][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:10.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:10.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.056][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:10.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:10.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:10.059][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:10.059][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:10.060][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:10.061][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.062][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.062][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.062][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-08-31 18:25:10.063][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-08-31 18:25:10.064][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-31 18:25:10.065][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-08-31 18:25:10.065][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-08-31 18:25:10.066][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-08-31 18:25:10.067][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-31 18:25:10.067][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-08-31 18:25:10.068][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-31 18:25:10.068][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:10.069][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:10.069][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:10.070][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.071][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.071][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.071][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:10.072][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:10.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:10.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.073][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:10.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:10.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.076][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:10.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:10.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:10.077][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:10.078][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:10.078][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:10.079][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.080][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.080][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.080][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:10.081][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:10.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:10.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.082][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:10.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:10.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.083][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:10.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:10.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:10.084][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:10.084][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:10.084][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:10.086][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.086][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.087][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.087][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:10.087][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:10.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:10.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.089][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:10.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:10.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.090][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:10.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:10.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:10.091][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-31 18:25:10.091][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:10.092][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:10.092][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:10.093][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.094][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.094][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.094][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:10.095][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.096][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.097][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 18:25:10.097][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-31 18:25:10.097][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-31 18:25:10.098][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-31 18:25:10.098][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 18:25:10.098][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.098][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.099][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.099][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.099][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.100][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.100][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.100][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.100][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 18:25:10.101][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 18:25:10.101][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.101][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.102][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.102][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.102][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-31 18:25:10.102][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.104][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.105][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.106][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-08-31 18:25:10.106][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:10.106][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:10.107][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:10.108][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.108][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.109][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.109][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:10.109][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.111][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.112][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 18:25:10.112][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-31 18:25:10.112][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-31 18:25:10.113][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-31 18:25:10.113][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 18:25:10.113][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.114][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.114][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.114][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.114][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.115][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.115][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.115][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.115][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 18:25:10.116][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 18:25:10.116][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.116][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.116][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.117][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.117][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-31 18:25:10.117][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.118][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.119][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.121][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-08-31 18:25:10.121][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:10.121][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:10.121][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:10.123][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.123][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.124][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.124][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:10.124][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.125][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.127][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 18:25:10.127][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-31 18:25:10.127][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-31 18:25:10.128][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-31 18:25:10.128][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 18:25:10.128][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.128][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.129][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.129][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.129][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.129][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.130][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.130][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.130][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 18:25:10.130][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 18:25:10.131][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.131][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.131][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.131][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.132][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-31 18:25:10.132][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.133][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.134][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.135][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-08-31 18:25:10.136][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-31 18:25:10.136][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-08-31 18:25:10.143][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-08-31 18:25:10.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-08-31 18:25:10.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-08-31 18:25:10.145][biodb::testThat]
biodb.INFO [2025-08-31 18:25:10.145][biodb::testThat] Running test function  test.wrong.entry  (" Wrong entry gives NULL ").
biodb.INFO [2025-08-31 18:25:10.146][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-31 18:25:10.146][biodb::testThat]
biodb.DEBUG[2025-08-31 18:25:10.146][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2025-08-31 18:25:10.147][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-31 18:25:10.147][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-31 18:25:10.148][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGA.xml.
biodb.DEBUG[2025-08-31 18:25:10.148][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-31 18:25:10.149][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-31 18:25:10.149][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-31 18:25:10.150][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:10.150][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:10.150][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:10.152][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.152][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.152][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.153][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:10.153][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:10.154][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:10.154][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.154][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.155][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:10.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:10.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.156][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 18:25:10.156][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 18:25:10.156][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.157][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.157][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 18:25:10.157][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 18:25:10.157][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.158][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.158][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 18:25:10.158][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 18:25:10.159][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.159][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.159][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 18:25:10.159][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 18:25:10.160][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.160][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.160][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-31 18:25:10.161][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-31 18:25:10.161][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.161][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.161][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 18:25:10.162][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:10.162][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.162][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.162][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:10.163][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:10.163][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.163][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.164][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-31 18:25:10.164][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 18:25:10.164][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.164][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.165][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 18:25:10.165][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 18:25:10.165][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.168][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.168][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 18:25:10.169][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 18:25:10.169][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.169][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.170][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.171][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.172][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:10.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:10.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.173][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.174][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:10.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:10.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.175][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:10.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:10.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.176][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:10.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:10.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.177][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:10.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:10.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.178][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:10.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:10.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.179][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:10.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:10.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:10.181][self$createEntryFromContent] Accession numbers: .
biodb.DEBUG[2025-08-31 18:25:10.181][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2025-08-31 18:25:10.184][biodb::testThat]
biodb.INFO [2025-08-31 18:25:10.185][biodb::testThat] Running test function  test.wrong.entry.among.good.ones  (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2025-08-31 18:25:10.185][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-31 18:25:10.185][biodb::testThat]
biodb.DEBUG[2025-08-31 18:25:10.188][function(conn, opt)] IDS: [4]: "WRONGB, 15440, 2528, 7799"
biodb.DEBUG[2025-08-31 18:25:10.188][private$loadEntries] Creating entries from ids [3]: "WRONGB, 2528, 7799".
biodb.DEBUG[2025-08-31 18:25:10.189][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
fscache.INFO [2025-08-31 18:25:10.189][cch$loadContents] Load 3 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-31 18:25:10.190][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGB.xml.
fscache.DEBUG[2025-08-31 18:25:10.191][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2528.xml.
fscache.DEBUG[2025-08-31 18:25:10.193][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7799.xml.
biodb.DEBUG[2025-08-31 18:25:10.193][conn$getEntryContent] 3 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-31 18:25:10.194][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2025-08-31 18:25:10.194][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2025-08-31 18:25:10.194][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:10.195][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:10.195][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:10.196][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.197][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.197][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.197][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:10.198][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:10.198][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:10.199][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.199][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.199][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:10.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:10.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.200][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 18:25:10.201][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 18:25:10.201][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.201][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.201][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 18:25:10.202][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 18:25:10.202][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.202][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.203][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 18:25:10.203][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 18:25:10.203][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.204][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.204][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 18:25:10.204][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 18:25:10.205][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.205][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.205][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-31 18:25:10.206][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-31 18:25:10.206][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.206][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.207][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 18:25:10.207][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:10.207][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.207][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.208][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:10.208][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:10.208][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.209][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.209][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-31 18:25:10.209][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 18:25:10.209][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.210][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.210][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 18:25:10.210][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 18:25:10.211][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.211][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.211][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 18:25:10.211][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 18:25:10.212][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.212][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.212][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.213][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.215][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:10.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:10.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.216][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.217][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:10.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:10.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.218][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:10.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:10.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.219][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:10.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:10.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:10.221][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:10.221][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:10.221][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:10.223][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.223][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.224][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.224][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:10.225][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:10.225][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:10.225][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.226][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.226][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:10.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:10.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.227][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 18:25:10.227][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 18:25:10.228][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.228][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.228][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 18:25:10.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 18:25:10.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.229][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 18:25:10.230][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 18:25:10.230][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.230][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.230][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 18:25:10.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 18:25:10.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.232][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 18:25:10.232][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 18:25:10.232][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.233][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.233][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 18:25:10.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 18:25:10.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.234][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 18:25:10.234][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 18:25:10.235][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.235][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.235][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 18:25:10.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 18:25:10.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.236][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-31 18:25:10.237][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-31 18:25:10.237][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.237][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.238][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-31 18:25:10.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-31 18:25:10.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.239][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 18:25:10.239][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:10.239][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.239][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.240][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 18:25:10.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:10.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.241][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:10.242][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:10.242][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.242][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.242][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:10.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:10.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.244][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-31 18:25:10.244][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 18:25:10.244][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.244][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.245][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-31 18:25:10.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 18:25:10.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.246][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 18:25:10.246][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 18:25:10.247][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.247][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.247][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 18:25:10.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 18:25:10.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.248][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 18:25:10.249][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 18:25:10.249][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.249][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.249][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 18:25:10.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 18:25:10.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.251][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.252][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.253][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:10.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:10.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.255][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.257][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:10.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:10.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.258][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:10.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:10.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.260][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:10.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:10.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:10.262][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:10.262][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:10.265][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:10.266][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.267][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.267][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.267][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 18:25:10.268][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:10.268][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:10.269][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.269][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.269][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:10.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:10.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.270][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 18:25:10.270][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 18:25:10.271][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.271][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.271][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 18:25:10.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 18:25:10.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.272][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 18:25:10.273][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 18:25:10.273][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.273][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.274][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 18:25:10.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 18:25:10.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.275][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 18:25:10.275][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 18:25:10.275][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.276][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.276][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 18:25:10.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 18:25:10.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.277][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 18:25:10.278][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 18:25:10.278][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.279][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.280][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 18:25:10.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 18:25:10.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.281][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-31 18:25:10.281][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-31 18:25:10.281][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.282][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.282][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-31 18:25:10.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-31 18:25:10.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.283][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 18:25:10.283][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:10.284][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.284][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.284][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 18:25:10.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:10.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.285][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:10.285][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:10.286][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.286][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.286][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:10.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:10.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.287][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-31 18:25:10.288][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 18:25:10.288][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.288][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.288][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-31 18:25:10.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 18:25:10.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.289][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 18:25:10.290][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 18:25:10.290][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.290][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.291][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 18:25:10.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 18:25:10.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.292][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 18:25:10.292][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 18:25:10.292][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.292][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.293][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 18:25:10.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 18:25:10.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.294][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.295][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.296][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:10.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:10.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.297][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:10.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.298][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:10.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:10.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.299][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:10.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:10.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.300][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:10.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:10.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.301][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:10.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:10.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.302][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:10.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:10.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.303][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:10.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:10.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.304][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:10.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:10.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.305][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:10.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:10.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.307][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:10.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:10.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.308][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:10.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:10.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.309][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:10.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:10.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.310][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:10.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:10.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:10.311][self$createEntryFromContent] Accession numbers: , 2528, 7799.
biodb.DEBUG[2025-08-31 18:25:10.311][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2025-08-31 18:25:10.311][function(conn, opt)] Entries: [4]: "NULL, <environment>, <environment>, <environment>"
biodb.INFO [2025-08-31 18:25:10.316][biodb::testThat]
biodb.INFO [2025-08-31 18:25:10.316][biodb::testThat] Running test function  test.peak.table  (" The peak table is correct. ").
biodb.INFO [2025-08-31 18:25:10.316][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-31 18:25:10.316][biodb::testThat]
biodb.INFO [2025-08-31 18:25:10.324][biodb::testThat]
biodb.INFO [2025-08-31 18:25:10.325][biodb::testThat] Running test function  test.nb.entries  (" Nb entries is positive. ").
biodb.INFO [2025-08-31 18:25:10.325][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-31 18:25:10.325][biodb::testThat]
biodb.INFO [2025-08-31 18:25:10.328][biodb::testThat]
biodb.INFO [2025-08-31 18:25:10.328][biodb::testThat] Running test function  test.entry.ids  (" We can get a list of entry ids. ").
biodb.INFO [2025-08-31 18:25:10.328][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-31 18:25:10.329][biodb::testThat]
sched.DEBUG[2025-08-31 18:25:10.329][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=1*&searchCategory=CHEBI ID&maximumResults=100&starsCategory=ALL".
fscache.INFO [2025-08-31 18:25:10.330][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-31 18:25:10.332][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/02ece1564def26723013d564c4071584.content.
sched.DEBUG[2025-08-31 18:25:10.333][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.TRACE[2025-08-31 18:25:10.337][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-31 18:25:10.337][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 18:25:10.337][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.337][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.338][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:10.338][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:10.338][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.339][ef$get] fields variable is a list.
biodb.INFO [2025-08-31 18:25:10.339][biodb::testThat]
biodb.INFO [2025-08-31 18:25:10.339][biodb::testThat] Running test function  test.annotateMzValues  (" annotateMzValues() works correctly. ").
biodb.INFO [2025-08-31 18:25:10.340][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-31 18:25:10.340][biodb::testThat]
biodb.ERROR[2025-08-31 18:25:10.344][conn$annotateMzValues] No column named "mz" was found inside data frame.
biodb.ERROR[2025-08-31 18:25:10.349][ef$checkIsDefined] Field(s) "foo" is/are not defined.
biodb.INFO [2025-08-31 18:25:10.353][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-08-31 18:25:10.353][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-08-31 18:25:10.353][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-08-31 18:25:10.354][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:10.354][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:10.354][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.354][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.355][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.355][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-08-31 18:25:10.361][biodb::testContext]
biodb.INFO [2025-08-31 18:25:10.361][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-31 18:25:10.361][biodb::testContext] Test context - Test conversions
biodb.INFO [2025-08-31 18:25:10.361][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-31 18:25:10.362][biodb::testContext]
biodb.INFO [2025-08-31 18:25:10.362][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.1.
biodb.DEBUG[2025-08-31 18:25:10.363][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-08-31 18:25:10.364][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-31 18:25:10.365][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-08-31 18:25:10.365][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-08-31 18:25:10.365][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.366][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.366][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.366][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-08-31 18:25:10.366][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-08-31 18:25:10.367][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.367][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.367][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.367][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-08-31 18:25:10.368][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-08-31 18:25:10.368][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.368][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.368][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.369][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-08-31 18:25:10.369][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-08-31 18:25:10.369][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-08-31 18:25:10.369][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.369][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.370][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.370][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-08-31 18:25:10.370][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-08-31 18:25:10.370][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-08-31 18:25:10.371][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.371][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.371][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.372][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-08-31 18:25:10.372][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-08-31 18:25:10.372][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.372][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.373][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.373][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-08-31 18:25:10.373][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-08-31 18:25:10.374][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-08-31 18:25:10.374][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.374][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.374][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.375][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-08-31 18:25:10.375][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-08-31 18:25:10.375][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.375][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.375][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.376][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-08-31 18:25:10.376][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-08-31 18:25:10.376][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-08-31 18:25:10.376][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.377][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.377][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.377][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-08-31 18:25:10.377][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-08-31 18:25:10.378][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-08-31 18:25:10.378][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-08-31 18:25:10.378][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-08-31 18:25:10.378][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-08-31 18:25:10.379][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.379][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.379][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.379][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-08-31 18:25:10.380][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-08-31 18:25:10.380][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.380][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.381][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.381][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-08-31 18:25:10.381][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-08-31 18:25:10.382][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.382][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.382][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.382][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-08-31 18:25:10.383][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-08-31 18:25:10.383][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.383][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.383][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.384][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-08-31 18:25:10.384][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-08-31 18:25:10.384][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-08-31 18:25:10.384][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.385][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.385][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.385][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-08-31 18:25:10.385][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-08-31 18:25:10.390][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-08-31 18:25:10.391][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.391][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.391][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.392][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-08-31 18:25:10.392][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-08-31 18:25:10.392][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-08-31 18:25:10.392][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.393][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.393][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.393][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-08-31 18:25:10.394][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-31 18:25:10.394][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-08-31 18:25:10.394][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-31 18:25:10.394][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-31 18:25:10.395][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-31 18:25:10.395][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-31 18:25:10.395][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-31 18:25:10.395][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-31 18:25:10.396][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-31 18:25:10.396][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-31 18:25:10.396][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-31 18:25:10.397][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-08-31 18:25:10.397][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-31 18:25:10.397][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-31 18:25:10.397][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-31 18:25:10.398][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-31 18:25:10.398][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-31 18:25:10.398][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-31 18:25:10.398][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-31 18:25:10.398][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-31 18:25:10.398][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-31 18:25:10.398][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-31 18:25:10.398][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-31 18:25:10.399][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-31 18:25:10.399][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-31 18:25:10.399][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-31 18:25:10.399][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-31 18:25:10.400][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-31 18:25:10.400][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-31 18:25:10.400][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-31 18:25:10.401][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-31 18:25:10.401][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-31 18:25:10.401][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-08-31 18:25:10.402][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-31 18:25:10.402][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-08-31 18:25:10.402][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-31 18:25:10.403][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-31 18:25:10.403][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-31 18:25:10.403][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-31 18:25:10.404][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-31 18:25:10.404][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-31 18:25:10.404][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-31 18:25:10.404][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-31 18:25:10.405][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-31 18:25:10.405][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-08-31 18:25:10.405][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-31 18:25:10.405][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-31 18:25:10.406][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-31 18:25:10.406][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-31 18:25:10.406][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-31 18:25:10.406][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-31 18:25:10.406][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-31 18:25:10.406][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-31 18:25:10.406][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-31 18:25:10.406][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-31 18:25:10.407][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-31 18:25:10.407][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-31 18:25:10.407][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-31 18:25:10.407][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-31 18:25:10.408][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-31 18:25:10.408][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-31 18:25:10.408][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-31 18:25:10.408][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-31 18:25:10.409][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-31 18:25:10.409][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-31 18:25:10.409][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-08-31 18:25:10.410][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-31 18:25:10.410][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-08-31 18:25:10.410][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-31 18:25:10.410][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-31 18:25:10.411][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-31 18:25:10.411][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-31 18:25:10.411][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-31 18:25:10.412][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-31 18:25:10.412][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-31 18:25:10.412][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-31 18:25:10.412][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-31 18:25:10.413][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-08-31 18:25:10.413][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-31 18:25:10.413][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-31 18:25:10.413][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-31 18:25:10.414][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-08-31 18:25:10.414][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-31 18:25:10.414][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-31 18:25:10.414][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-31 18:25:10.415][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-31 18:25:10.415][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-31 18:25:10.415][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-31 18:25:10.415][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-31 18:25:10.416][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-31 18:25:10.416][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-31 18:25:10.416][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-31 18:25:10.416][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-31 18:25:10.417][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-31 18:25:10.417][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-08-31 18:25:10.418][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-31 18:25:10.418][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-08-31 18:25:10.418][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-31 18:25:10.418][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-31 18:25:10.419][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-31 18:25:10.419][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-31 18:25:10.419][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-31 18:25:10.420][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-31 18:25:10.420][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-31 18:25:10.420][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-31 18:25:10.421][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-31 18:25:10.421][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-08-31 18:25:10.421][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-31 18:25:10.422][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-31 18:25:10.422][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-31 18:25:10.422][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-08-31 18:25:10.423][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-31 18:25:10.423][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-31 18:25:10.423][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-31 18:25:10.424][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-31 18:25:10.424][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-31 18:25:10.424][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-31 18:25:10.424][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-31 18:25:10.425][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-31 18:25:10.425][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-31 18:25:10.425][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-31 18:25:10.425][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-31 18:25:10.426][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-31 18:25:10.426][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-31 18:25:10.426][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.427][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.427][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.427][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.427][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.427][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.428][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.428][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.428][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.428][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.429][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.429][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.429][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.429][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.430][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.430][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.430][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.430][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.431][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.431][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.431][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.432][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.432][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.432][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.432][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.433][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.433][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.433][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.433][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.434][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.434][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.434][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.434][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.434][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.435][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.435][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.435][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.435][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.436][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.436][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.436][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.436][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.437][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.437][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.437][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.438][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.438][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.438][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.438][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.438][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.439][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.439][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.439][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.439][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.440][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.440][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.440][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.441][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.441][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.441][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.441][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.441][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.442][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.442][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.442][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.442][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.443][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.443][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.443][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.443][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.444][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.444][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[2025-08-31 18:25:10.444][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.444][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.447][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.447][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.448][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.448][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.448][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.448][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.449][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.449][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.449][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-08-31 18:25:10.450][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-08-31 18:25:10.450][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-08-31 18:25:10.451][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-08-31 18:25:10.451][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-08-31 18:25:10.451][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-08-31 18:25:10.452][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-08-31 18:25:10.452][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-08-31 18:25:10.453][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-08-31 18:25:10.453][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-08-31 18:25:10.454][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-08-31 18:25:10.454][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-08-31 18:25:10.454][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-08-31 18:25:10.455][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-08-31 18:25:10.455][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-08-31 18:25:10.455][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-08-31 18:25:10.456][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-08-31 18:25:10.456][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-08-31 18:25:10.457][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-08-31 18:25:10.457][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-08-31 18:25:10.457][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-08-31 18:25:10.458][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-08-31 18:25:10.458][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-08-31 18:25:10.459][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-08-31 18:25:10.459][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-08-31 18:25:10.460][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-08-31 18:25:10.460][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-08-31 18:25:10.461][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-08-31 18:25:10.461][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-08-31 18:25:10.461][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-08-31 18:25:10.462][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-08-31 18:25:10.462][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-08-31 18:25:10.463][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-08-31 18:25:10.463][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-08-31 18:25:10.464][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-08-31 18:25:10.464][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-08-31 18:25:10.465][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-08-31 18:25:10.465][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-08-31 18:25:10.465][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-08-31 18:25:10.466][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-08-31 18:25:10.466][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-08-31 18:25:10.467][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-08-31 18:25:10.468][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-08-31 18:25:10.468][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-08-31 18:25:10.468][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-08-31 18:25:10.469][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-08-31 18:25:10.469][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-08-31 18:25:10.470][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-08-31 18:25:10.470][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-08-31 18:25:10.470][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-08-31 18:25:10.471][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-08-31 18:25:10.471][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-08-31 18:25:10.472][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-08-31 18:25:10.472][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-08-31 18:25:10.473][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-08-31 18:25:10.473][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-08-31 18:25:10.473][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-08-31 18:25:10.474][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-08-31 18:25:10.474][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-08-31 18:25:10.474][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-08-31 18:25:10.475][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-08-31 18:25:10.475][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-08-31 18:25:10.476][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-08-31 18:25:10.476][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-08-31 18:25:10.476][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-08-31 18:25:10.477][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-08-31 18:25:10.477][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-08-31 18:25:10.478][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-08-31 18:25:10.478][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-08-31 18:25:10.478][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-08-31 18:25:10.479][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-08-31 18:25:10.479][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-08-31 18:25:10.479][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-08-31 18:25:10.480][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-08-31 18:25:10.480][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-08-31 18:25:10.481][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-08-31 18:25:10.481][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-08-31 18:25:10.481][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-08-31 18:25:10.482][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-08-31 18:25:10.482][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-08-31 18:25:10.483][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-08-31 18:25:10.483][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-08-31 18:25:10.483][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-08-31 18:25:10.484][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-08-31 18:25:10.484][initialize] This is biodb version 1.17.1.
biodb.DEBUG[2025-08-31 18:25:10.485][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-31 18:25:10.485][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.485][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.485][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.486][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.486][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.486][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:10.486][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:10.486][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.487][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.487][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.487][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.487][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.488][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:10.488][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:10.488][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.488][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.489][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.489][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.489][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.489][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:10.489][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:10.490][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.490][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.490][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.490][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.491][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.491][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:10.491][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:10.491][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.492][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.492][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.492][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.492][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.492][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:10.493][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:10.493][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.493][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.493][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.494][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[2025-08-31 18:25:10.494][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.494][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:10.494][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:10.494][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.495][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.495][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.495][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.495][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.496][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:10.496][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:10.496][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.496][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.497][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.497][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.497][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.497][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:10.497][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:10.498][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.498][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.498][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.498][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.DEBUG[2025-08-31 18:25:10.499][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.499][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:10.499][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:10.499][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.499][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.500][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.500][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.DEBUG[2025-08-31 18:25:10.500][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.500][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:10.501][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:10.501][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.501][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.501][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.501][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.502][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.502][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:10.502][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:10.502][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.503][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.503][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.503][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.503][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.503][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:10.504][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:10.504][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.504][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.504][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.505][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.505][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.505][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:10.505][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:10.506][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.506][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.506][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.506][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.506][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.507][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:10.507][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:10.507][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.507][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.508][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.508][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[2025-08-31 18:25:10.508][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.508][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:10.508][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:10.509][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.509][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.509][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.509][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.510][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.510][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:10.510][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:10.510][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.511][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.511][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.511][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.512][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-08-31 18:25:10.512][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-08-31 18:25:10.513][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-31 18:25:10.513][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-08-31 18:25:10.513][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-31 18:25:10.514][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-31 18:25:10.514][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-31 18:25:10.514][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-31 18:25:10.515][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-08-31 18:25:10.515][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-08-31 18:25:10.515][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-08-31 18:25:10.515][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-31 18:25:10.516][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-31 18:25:10.516][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-08-31 18:25:10.516][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-31 18:25:10.516][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-08-31 18:25:10.516][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-08-31 18:25:10.516][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-08-31 18:25:10.516][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-08-31 18:25:10.516][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-08-31 18:25:10.516][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-08-31 18:25:10.516][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-08-31 18:25:10.516][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-08-31 18:25:10.516][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-08-31 18:25:10.516][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-08-31 18:25:10.516][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-08-31 18:25:10.517][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-08-31 18:25:10.517][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-31 18:25:10.517][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-31 18:25:10.517][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-31 18:25:10.517][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-08-31 18:25:10.518][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-31 18:25:10.518][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-31 18:25:10.518][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-31 18:25:10.518][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-31 18:25:10.519][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-31 18:25:10.519][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-31 18:25:10.519][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-31 18:25:10.519][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-08-31 18:25:10.519][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-31 18:25:10.520][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-31 18:25:10.520][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-08-31 18:25:10.520][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-08-31 18:25:10.520][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-08-31 18:25:10.520][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-08-31 18:25:10.521][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-08-31 18:25:10.521][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-08-31 18:25:10.522][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-08-31 18:25:10.522][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-08-31 18:25:10.523][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-08-31 18:25:10.524][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-08-31 18:25:10.525][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-08-31 18:25:10.526][biodb::testThat]
biodb.INFO [2025-08-31 18:25:10.526][biodb::testThat] Running test function  test_chebi_convCasToChebi  (" convCasToChebi() works. ").
biodb.INFO [2025-08-31 18:25:10.526][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-31 18:25:10.526][biodb::testThat]
sched.DEBUG[2025-08-31 18:25:10.527][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-08-31 18:25:10.528][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-31 18:25:10.530][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-08-31 18:25:10.531][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-08-31 18:25:10.534][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-08-31 18:25:10.535][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-31 18:25:10.536][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-08-31 18:25:10.536][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-31 18:25:10.537][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:10.537][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:10.537][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:10.539][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.539][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.540][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.540][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-08-31 18:25:10.540][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-08-31 18:25:10.541][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-31 18:25:10.542][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-08-31 18:25:10.542][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-31 18:25:10.543][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:10.543][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:10.544][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:10.546][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.547][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.547][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.547][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.553][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:10.553][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:10.553][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:10.555][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.555][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.556][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.556][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-08-31 18:25:10.557][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-08-31 18:25:10.558][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-31 18:25:10.559][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-08-31 18:25:10.559][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-31 18:25:10.559][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:10.560][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:10.560][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:10.561][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.562][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.562][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.562][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-08-31 18:25:10.563][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-08-31 18:25:10.564][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-31 18:25:10.564][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-08-31 18:25:10.564][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-31 18:25:10.565][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:10.565][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:10.565][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:10.567][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.567][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.567][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.568][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.568][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:10.568][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:10.568][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:10.570][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.570][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.571][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.571][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".
sched.DEBUG[2025-08-31 18:25:10.572][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-08-31 18:25:10.573][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-31 18:25:10.573][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-08-31 18:25:10.574][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-31 18:25:10.574][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:10.574][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:10.575][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:10.576][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.577][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.577][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.577][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-08-31 18:25:10.578][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-08-31 18:25:10.579][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-31 18:25:10.579][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-08-31 18:25:10.580][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-31 18:25:10.580][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:10.580][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:10.581][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:10.582][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.583][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.583][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.583][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-08-31 18:25:10.584][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=14215-68-0&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-08-31 18:25:10.584][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-31 18:25:10.585][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/d853ab8a48594978d76c30b86726648a.content.
sched.DEBUG[2025-08-31 18:25:10.585][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-31 18:25:10.586][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:10.587][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:10.587][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:10.588][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.589][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.589][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.589][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-08-31 18:25:10.591][biodb::testThat]
biodb.INFO [2025-08-31 18:25:10.592][biodb::testThat] Running test function  test_chebi_convInchiToChebi  (" convInchiToChebi() works. ").
biodb.INFO [2025-08-31 18:25:10.592][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-31 18:25:10.592][biodb::testThat]
sched.DEBUG[2025-08-31 18:25:10.593][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=InChI=1S/C15H24/c1-9(2)11-7-8-15(4)12-6-5-10(3)14(15)13(11)12/h5,9,11-14H,6-8H2,1-4H3/t11?,12?,13?,14?,15-/m0/s1&searchCategory=INCHI/INCHI KEY&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-08-31 18:25:10.594][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-31 18:25:10.595][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/aa56e28005d49da17591454624aabcd2.content.
sched.DEBUG[2025-08-31 18:25:10.595][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-31 18:25:10.596][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:10.596][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:10.596][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:10.598][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.598][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.598][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.599][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-08-31 18:25:10.600][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=VLXDPFLIRFYIME-MWHZVNNOSA-N&searchCategory=INCHI/INCHI KEY&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-08-31 18:25:10.600][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-31 18:25:10.601][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/c62078a064e3122e21e26c3428179396.content.
sched.DEBUG[2025-08-31 18:25:10.602][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-31 18:25:10.602][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:10.602][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:10.603][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:10.604][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.605][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.605][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.605][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-08-31 18:25:10.607][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-08-31 18:25:10.607][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-08-31 18:25:10.607][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-08-31 18:25:10.608][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:10.608][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:10.608][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.608][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.609][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.609][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-08-31 18:25:10.610][biodb::testContext]
biodb.INFO [2025-08-31 18:25:10.610][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-31 18:25:10.611][biodb::testContext] Test context - Test web services
biodb.INFO [2025-08-31 18:25:10.611][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-31 18:25:10.611][biodb::testContext]
biodb.INFO [2025-08-31 18:25:10.612][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.1.
biodb.DEBUG[2025-08-31 18:25:10.613][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-08-31 18:25:10.614][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-31 18:25:10.615][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-08-31 18:25:10.615][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-08-31 18:25:10.615][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.615][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.616][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.616][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-08-31 18:25:10.619][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-08-31 18:25:10.619][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.620][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.620][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.620][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-08-31 18:25:10.620][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-08-31 18:25:10.621][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.621][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.621][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.621][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-08-31 18:25:10.622][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-08-31 18:25:10.622][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-08-31 18:25:10.622][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.622][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.622][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[2025-08-31 18:25:10.623][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-08-31 18:25:10.623][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-08-31 18:25:10.623][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-08-31 18:25:10.623][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.624][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.624][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.624][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-08-31 18:25:10.624][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-08-31 18:25:10.625][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.625][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.625][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.625][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-08-31 18:25:10.626][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-08-31 18:25:10.626][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-08-31 18:25:10.626][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.626][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.627][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.627][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-08-31 18:25:10.627][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-08-31 18:25:10.627][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.627][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.628][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.628][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-08-31 18:25:10.628][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-08-31 18:25:10.628][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-08-31 18:25:10.629][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.629][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.629][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.629][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-08-31 18:25:10.630][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-08-31 18:25:10.630][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-08-31 18:25:10.630][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-08-31 18:25:10.630][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-08-31 18:25:10.631][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-08-31 18:25:10.631][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.631][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.631][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.632][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-08-31 18:25:10.632][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-08-31 18:25:10.632][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.632][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.633][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.633][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-08-31 18:25:10.633][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-08-31 18:25:10.633][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.634][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.634][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.634][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-08-31 18:25:10.634][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-08-31 18:25:10.635][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.635][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.635][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.635][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-08-31 18:25:10.636][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-08-31 18:25:10.636][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-08-31 18:25:10.636][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.637][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.637][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.637][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-08-31 18:25:10.637][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-08-31 18:25:10.642][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-08-31 18:25:10.643][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.643][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.643][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.643][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-08-31 18:25:10.644][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-08-31 18:25:10.644][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-08-31 18:25:10.644][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.644][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.645][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.645][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-08-31 18:25:10.646][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-31 18:25:10.646][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-08-31 18:25:10.646][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-31 18:25:10.647][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-31 18:25:10.647][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-31 18:25:10.647][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-31 18:25:10.647][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-31 18:25:10.648][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-31 18:25:10.648][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-31 18:25:10.648][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-31 18:25:10.648][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-31 18:25:10.649][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-08-31 18:25:10.649][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-31 18:25:10.649][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-31 18:25:10.649][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-31 18:25:10.650][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-31 18:25:10.650][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-31 18:25:10.650][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-31 18:25:10.650][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-31 18:25:10.650][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-31 18:25:10.650][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-31 18:25:10.650][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-31 18:25:10.650][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-31 18:25:10.651][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-31 18:25:10.651][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-31 18:25:10.651][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-31 18:25:10.651][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-31 18:25:10.652][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-31 18:25:10.652][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-31 18:25:10.652][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-31 18:25:10.652][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-31 18:25:10.653][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-31 18:25:10.653][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-08-31 18:25:10.653][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-31 18:25:10.654][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-08-31 18:25:10.654][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-31 18:25:10.654][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-31 18:25:10.655][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-31 18:25:10.655][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-31 18:25:10.655][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-31 18:25:10.655][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-31 18:25:10.656][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-31 18:25:10.656][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-31 18:25:10.656][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-31 18:25:10.656][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-08-31 18:25:10.657][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-31 18:25:10.657][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-31 18:25:10.657][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-31 18:25:10.657][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-31 18:25:10.657][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-31 18:25:10.657][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-31 18:25:10.657][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-31 18:25:10.657][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-31 18:25:10.658][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-31 18:25:10.658][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-31 18:25:10.658][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-31 18:25:10.658][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-31 18:25:10.659][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-31 18:25:10.659][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-31 18:25:10.659][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-31 18:25:10.659][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-31 18:25:10.660][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-31 18:25:10.660][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-31 18:25:10.660][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-31 18:25:10.660][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-31 18:25:10.661][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-08-31 18:25:10.661][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-31 18:25:10.661][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-08-31 18:25:10.662][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-31 18:25:10.662][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-31 18:25:10.662][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-31 18:25:10.663][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-31 18:25:10.663][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-31 18:25:10.663][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-31 18:25:10.663][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-31 18:25:10.664][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-31 18:25:10.664][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-31 18:25:10.664][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-08-31 18:25:10.664][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-31 18:25:10.665][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-31 18:25:10.665][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-31 18:25:10.665][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-08-31 18:25:10.665][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-31 18:25:10.666][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-31 18:25:10.666][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-31 18:25:10.666][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-31 18:25:10.667][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-31 18:25:10.667][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-31 18:25:10.667][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-31 18:25:10.667][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-31 18:25:10.668][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-31 18:25:10.668][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-31 18:25:10.668][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-31 18:25:10.668][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-31 18:25:10.669][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-08-31 18:25:10.669][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-31 18:25:10.670][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-08-31 18:25:10.670][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-31 18:25:10.670][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-31 18:25:10.671][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-31 18:25:10.671][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-31 18:25:10.671][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-31 18:25:10.672][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-31 18:25:10.672][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-31 18:25:10.672][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-31 18:25:10.672][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-31 18:25:10.673][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-08-31 18:25:10.673][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-31 18:25:10.673][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-31 18:25:10.674][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-31 18:25:10.674][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-08-31 18:25:10.674][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-31 18:25:10.674][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-31 18:25:10.675][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-31 18:25:10.675][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-31 18:25:10.675][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-31 18:25:10.675][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-31 18:25:10.676][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-31 18:25:10.676][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-31 18:25:10.676][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-31 18:25:10.676][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-31 18:25:10.677][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-31 18:25:10.677][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-31 18:25:10.677][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-31 18:25:10.678][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.678][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.678][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.678][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.678][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.679][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.679][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[2025-08-31 18:25:10.679][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.679][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.680][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.680][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.680][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[2025-08-31 18:25:10.681][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.681][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.681][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.681][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.681][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.682][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.682][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.682][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.682][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.683][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.683][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.683][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.683][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.684][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.684][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.684][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.684][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.685][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.685][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.685][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[2025-08-31 18:25:10.685][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.686][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.686][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.686][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.686][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.687][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.687][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.687][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.687][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.688][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.688][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.688][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.688][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.689][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.689][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.689][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.689][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.690][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.690][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.690][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.690][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.690][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.691][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.691][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.691][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.691][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.692][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.692][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.692][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.692][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.693][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.693][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.693][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.693][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.693][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.694][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.694][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.694][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.694][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.695][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.695][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.695][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.695][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.696][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.696][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[2025-08-31 18:25:10.696][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.696][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.696][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.697][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.697][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.697][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-08-31 18:25:10.698][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-08-31 18:25:10.698][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-08-31 18:25:10.698][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-08-31 18:25:10.699][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-08-31 18:25:10.699][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-08-31 18:25:10.699][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-08-31 18:25:10.700][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-08-31 18:25:10.700][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-08-31 18:25:10.701][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-08-31 18:25:10.703][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-08-31 18:25:10.704][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-08-31 18:25:10.704][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-08-31 18:25:10.705][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-08-31 18:25:10.705][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-08-31 18:25:10.705][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-08-31 18:25:10.706][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-08-31 18:25:10.706][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-08-31 18:25:10.707][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-08-31 18:25:10.707][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-08-31 18:25:10.707][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-08-31 18:25:10.708][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-08-31 18:25:10.708][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-08-31 18:25:10.708][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-08-31 18:25:10.709][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-08-31 18:25:10.709][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-08-31 18:25:10.709][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-08-31 18:25:10.710][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-08-31 18:25:10.710][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-08-31 18:25:10.711][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-08-31 18:25:10.711][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-08-31 18:25:10.711][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-08-31 18:25:10.712][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-08-31 18:25:10.712][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-08-31 18:25:10.712][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-08-31 18:25:10.713][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-08-31 18:25:10.713][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-08-31 18:25:10.714][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-08-31 18:25:10.714][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-08-31 18:25:10.714][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-08-31 18:25:10.715][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-08-31 18:25:10.715][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-08-31 18:25:10.715][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-08-31 18:25:10.716][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-08-31 18:25:10.716][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-08-31 18:25:10.716][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-08-31 18:25:10.717][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-08-31 18:25:10.717][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-08-31 18:25:10.718][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-08-31 18:25:10.718][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-08-31 18:25:10.719][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-08-31 18:25:10.719][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-08-31 18:25:10.720][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-08-31 18:25:10.720][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-08-31 18:25:10.720][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-08-31 18:25:10.721][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-08-31 18:25:10.721][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-08-31 18:25:10.722][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-08-31 18:25:10.722][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-08-31 18:25:10.722][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-08-31 18:25:10.723][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-08-31 18:25:10.723][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-08-31 18:25:10.724][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-08-31 18:25:10.724][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-08-31 18:25:10.725][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-08-31 18:25:10.725][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-08-31 18:25:10.725][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-08-31 18:25:10.726][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-08-31 18:25:10.726][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-08-31 18:25:10.726][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-08-31 18:25:10.727][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-08-31 18:25:10.727][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-08-31 18:25:10.728][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-08-31 18:25:10.728][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-08-31 18:25:10.728][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-08-31 18:25:10.729][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-08-31 18:25:10.729][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-08-31 18:25:10.730][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-08-31 18:25:10.730][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-08-31 18:25:10.731][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-08-31 18:25:10.731][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-08-31 18:25:10.731][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-08-31 18:25:10.732][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-08-31 18:25:10.732][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-08-31 18:25:10.733][initialize] This is biodb version 1.17.1.
biodb.DEBUG[2025-08-31 18:25:10.733][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-31 18:25:10.733][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.733][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.734][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.734][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.734][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.734][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:10.735][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:10.735][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.735][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.735][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.736][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[2025-08-31 18:25:10.736][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.736][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:10.737][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:10.737][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.737][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.738][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.738][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.738][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.738][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:10.738][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:10.739][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.739][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.739][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.739][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.740][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.740][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:10.740][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:10.740][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.741][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.741][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.741][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.741][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.741][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:10.742][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:10.742][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.742][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.742][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.743][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.743][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.743][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:10.743][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:10.744][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.744][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.744][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.744][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[2025-08-31 18:25:10.745][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.745][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:10.745][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:10.745][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.745][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.746][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.746][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.746][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.746][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:10.747][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:10.747][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.747][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.747][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.748][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.DEBUG[2025-08-31 18:25:10.748][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.748][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:10.748][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:10.749][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.749][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.749][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.749][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[2025-08-31 18:25:10.750][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.750][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:10.750][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:10.750][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.751][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.751][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.751][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.751][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.752][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:10.752][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:10.752][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.752][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.752][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.753][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.753][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.753][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:10.753][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:10.754][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.754][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.754][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.754][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.755][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.755][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:10.755][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:10.755][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.755][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.756][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.756][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.756][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.756][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:10.757][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:10.757][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.757][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.757][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.758][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.758][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.758][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:10.758][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:10.759][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.759][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.759][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.760][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.760][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.760][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:10.760][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:10.761][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.761][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.761][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.761][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.762][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-08-31 18:25:10.762][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-08-31 18:25:10.763][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-31 18:25:10.763][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-08-31 18:25:10.764][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-31 18:25:10.764][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-31 18:25:10.764][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-31 18:25:10.764][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-31 18:25:10.765][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-08-31 18:25:10.765][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-08-31 18:25:10.765][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-08-31 18:25:10.766][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-31 18:25:10.766][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-31 18:25:10.766][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-08-31 18:25:10.766][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-31 18:25:10.767][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-08-31 18:25:10.767][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-08-31 18:25:10.767][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-08-31 18:25:10.767][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-08-31 18:25:10.767][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-08-31 18:25:10.767][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-08-31 18:25:10.767][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-08-31 18:25:10.767][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-08-31 18:25:10.767][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-08-31 18:25:10.767][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-08-31 18:25:10.767][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-08-31 18:25:10.767][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-08-31 18:25:10.767][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-31 18:25:10.767][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-31 18:25:10.767][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-31 18:25:10.768][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-08-31 18:25:10.768][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-31 18:25:10.768][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-31 18:25:10.768][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-31 18:25:10.769][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-31 18:25:10.769][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-31 18:25:10.769][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-31 18:25:10.770][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-31 18:25:10.770][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-08-31 18:25:10.770][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-31 18:25:10.770][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-31 18:25:10.771][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-08-31 18:25:10.771][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-08-31 18:25:10.771][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-08-31 18:25:10.771][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-08-31 18:25:10.772][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-08-31 18:25:10.772][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-08-31 18:25:10.773][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-08-31 18:25:10.773][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-08-31 18:25:10.773][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-08-31 18:25:10.775][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-08-31 18:25:10.776][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-08-31 18:25:10.777][biodb::testThat]
biodb.INFO [2025-08-31 18:25:10.777][biodb::testThat] Running test function  test.chebi.wsGetLiteEntity  (" Web service getLiteEntity works fine. ").
biodb.INFO [2025-08-31 18:25:10.777][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-31 18:25:10.778][biodb::testThat]
sched.DEBUG[2025-08-31 18:25:10.778][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-08-31 18:25:10.779][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-31 18:25:10.781][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-08-31 18:25:10.782][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-08-31 18:25:10.783][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI ID&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-08-31 18:25:10.784][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-31 18:25:10.784][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/45b8073beb9f4a9f751edf98e80ca9dd.content.
sched.DEBUG[2025-08-31 18:25:10.785][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.INFO [2025-08-31 18:25:10.788][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-08-31 18:25:10.788][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-08-31 18:25:10.788][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-08-31 18:25:10.788][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:10.789][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:10.789][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.792][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.792][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.793][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-08-31 18:25:10.794][biodb::testContext]
biodb.INFO [2025-08-31 18:25:10.794][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-31 18:25:10.795][biodb::testContext] Test context - Non regression tests
biodb.INFO [2025-08-31 18:25:10.795][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-31 18:25:10.795][biodb::testContext]
biodb.INFO [2025-08-31 18:25:10.796][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.1.
biodb.DEBUG[2025-08-31 18:25:10.796][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-08-31 18:25:10.798][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-31 18:25:10.798][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-08-31 18:25:10.798][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-08-31 18:25:10.799][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.799][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.799][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.799][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-08-31 18:25:10.800][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-08-31 18:25:10.800][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.800][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.800][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.801][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-08-31 18:25:10.801][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-08-31 18:25:10.801][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.801][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.802][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.DEBUG[2025-08-31 18:25:10.802][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-08-31 18:25:10.802][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-08-31 18:25:10.803][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-08-31 18:25:10.803][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.803][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.803][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.804][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-08-31 18:25:10.804][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-08-31 18:25:10.804][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-08-31 18:25:10.805][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.805][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.805][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.805][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-08-31 18:25:10.806][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-08-31 18:25:10.806][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.806][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.807][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.807][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-08-31 18:25:10.808][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-08-31 18:25:10.808][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-08-31 18:25:10.808][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.808][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.809][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.809][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-08-31 18:25:10.809][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-08-31 18:25:10.809][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.810][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.810][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.810][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-08-31 18:25:10.810][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-08-31 18:25:10.811][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-08-31 18:25:10.811][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.811][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.811][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[2025-08-31 18:25:10.812][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-08-31 18:25:10.812][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-08-31 18:25:10.812][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-08-31 18:25:10.812][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-08-31 18:25:10.813][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-08-31 18:25:10.813][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-08-31 18:25:10.813][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.813][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.814][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.814][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-08-31 18:25:10.814][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-08-31 18:25:10.814][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.815][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.815][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.815][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-08-31 18:25:10.815][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-08-31 18:25:10.816][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.816][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.816][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.816][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-08-31 18:25:10.817][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-08-31 18:25:10.817][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.817][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.817][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.818][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-08-31 18:25:10.818][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-08-31 18:25:10.818][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-08-31 18:25:10.818][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.819][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.819][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.819][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-08-31 18:25:10.819][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-08-31 18:25:10.824][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-08-31 18:25:10.824][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.824][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.825][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.825][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-08-31 18:25:10.825][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-08-31 18:25:10.826][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-08-31 18:25:10.826][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.826][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.826][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.827][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-08-31 18:25:10.827][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-31 18:25:10.828][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-08-31 18:25:10.828][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-31 18:25:10.828][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-31 18:25:10.828][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-31 18:25:10.829][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-31 18:25:10.829][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-31 18:25:10.829][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-31 18:25:10.830][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-31 18:25:10.830][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-31 18:25:10.830][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-31 18:25:10.830][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-08-31 18:25:10.831][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-31 18:25:10.831][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-31 18:25:10.831][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-31 18:25:10.831][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-31 18:25:10.831][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-31 18:25:10.831][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-31 18:25:10.831][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-31 18:25:10.831][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-31 18:25:10.832][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-31 18:25:10.832][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-31 18:25:10.832][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-31 18:25:10.833][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-31 18:25:10.833][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-31 18:25:10.833][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-31 18:25:10.833][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-31 18:25:10.834][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-31 18:25:10.834][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-31 18:25:10.834][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-31 18:25:10.834][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-31 18:25:10.835][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-31 18:25:10.835][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-08-31 18:25:10.835][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-31 18:25:10.836][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-08-31 18:25:10.836][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-31 18:25:10.836][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-31 18:25:10.836][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-31 18:25:10.837][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-31 18:25:10.837][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-31 18:25:10.837][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-31 18:25:10.837][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-31 18:25:10.838][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-31 18:25:10.838][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-31 18:25:10.838][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-08-31 18:25:10.839][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-31 18:25:10.839][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-31 18:25:10.839][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-31 18:25:10.839][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-31 18:25:10.839][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-31 18:25:10.839][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-31 18:25:10.839][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-31 18:25:10.839][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-31 18:25:10.840][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-31 18:25:10.840][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-31 18:25:10.840][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-31 18:25:10.840][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-31 18:25:10.841][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-31 18:25:10.841][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-31 18:25:10.841][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-31 18:25:10.841][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-31 18:25:10.842][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-31 18:25:10.842][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-31 18:25:10.842][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-31 18:25:10.842][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-31 18:25:10.843][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-08-31 18:25:10.843][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-31 18:25:10.844][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-08-31 18:25:10.844][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-31 18:25:10.844][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-31 18:25:10.844][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-31 18:25:10.845][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-31 18:25:10.845][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-31 18:25:10.845][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-31 18:25:10.845][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-31 18:25:10.846][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-31 18:25:10.846][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-31 18:25:10.846][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-08-31 18:25:10.847][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-31 18:25:10.847][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-31 18:25:10.847][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-31 18:25:10.847][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-08-31 18:25:10.848][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-31 18:25:10.848][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-31 18:25:10.848][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-31 18:25:10.849][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-31 18:25:10.849][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-31 18:25:10.849][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-31 18:25:10.849][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-31 18:25:10.850][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-31 18:25:10.850][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-31 18:25:10.850][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-31 18:25:10.850][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-31 18:25:10.851][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-31 18:25:10.851][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-08-31 18:25:10.851][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-31 18:25:10.852][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-08-31 18:25:10.852][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-31 18:25:10.852][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-31 18:25:10.853][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-31 18:25:10.853][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-31 18:25:10.853][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-31 18:25:10.853][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-31 18:25:10.854][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-31 18:25:10.854][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-31 18:25:10.854][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-31 18:25:10.854][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-08-31 18:25:10.855][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-31 18:25:10.855][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-31 18:25:10.855][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-31 18:25:10.855][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-08-31 18:25:10.856][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-31 18:25:10.856][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-31 18:25:10.856][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-31 18:25:10.856][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-31 18:25:10.857][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-31 18:25:10.857][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-31 18:25:10.857][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-31 18:25:10.857][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-31 18:25:10.858][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-31 18:25:10.858][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-31 18:25:10.858][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-31 18:25:10.858][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-31 18:25:10.859][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-31 18:25:10.859][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.859][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.859][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.860][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.860][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.860][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.860][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.861][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.861][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.861][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.861][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.861][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.862][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.862][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.862][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.862][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.863][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[2025-08-31 18:25:10.863][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.863][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.863][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.863][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.864][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.864][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.864][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.864][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.865][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.865][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.865][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.865][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.865][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.866][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.866][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.866][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.866][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.867][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.867][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.867][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.867][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.867][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.868][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.868][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.868][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.868][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.869][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.869][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.869][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.870][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.870][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.870][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.870][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.871][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.871][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.871][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.871][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.872][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.872][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.872][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[2025-08-31 18:25:10.872][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.872][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.873][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.873][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.873][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.873][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.874][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.874][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.874][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.874][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.875][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.875][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.875][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.876][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.876][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.879][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.879][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.879][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.879][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.880][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.880][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.880][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.881][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.881][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.881][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.881][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-08-31 18:25:10.882][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-08-31 18:25:10.882][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-08-31 18:25:10.882][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-08-31 18:25:10.883][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-08-31 18:25:10.883][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-08-31 18:25:10.884][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-08-31 18:25:10.884][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-08-31 18:25:10.884][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-08-31 18:25:10.885][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-08-31 18:25:10.885][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-08-31 18:25:10.886][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-08-31 18:25:10.886][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-08-31 18:25:10.886][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-08-31 18:25:10.887][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-08-31 18:25:10.887][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-08-31 18:25:10.887][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-08-31 18:25:10.888][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-08-31 18:25:10.888][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-08-31 18:25:10.889][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-08-31 18:25:10.889][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-08-31 18:25:10.889][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-08-31 18:25:10.890][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-08-31 18:25:10.890][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-08-31 18:25:10.891][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-08-31 18:25:10.891][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-08-31 18:25:10.891][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-08-31 18:25:10.892][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-08-31 18:25:10.892][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-08-31 18:25:10.893][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-08-31 18:25:10.893][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-08-31 18:25:10.893][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-08-31 18:25:10.894][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-08-31 18:25:10.894][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-08-31 18:25:10.894][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-08-31 18:25:10.895][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-08-31 18:25:10.895][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-08-31 18:25:10.896][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-08-31 18:25:10.896][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-08-31 18:25:10.897][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-08-31 18:25:10.897][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-08-31 18:25:10.897][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-08-31 18:25:10.898][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-08-31 18:25:10.898][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-08-31 18:25:10.899][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-08-31 18:25:10.899][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-08-31 18:25:10.899][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-08-31 18:25:10.900][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-08-31 18:25:10.900][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-08-31 18:25:10.901][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-08-31 18:25:10.901][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-08-31 18:25:10.901][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-08-31 18:25:10.902][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-08-31 18:25:10.903][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-08-31 18:25:10.904][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-08-31 18:25:10.905][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-08-31 18:25:10.906][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-08-31 18:25:10.908][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-08-31 18:25:10.908][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-08-31 18:25:10.908][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-08-31 18:25:10.909][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-08-31 18:25:10.909][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-08-31 18:25:10.910][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-08-31 18:25:10.911][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-08-31 18:25:10.911][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-08-31 18:25:10.911][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-08-31 18:25:10.912][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-08-31 18:25:10.912][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-08-31 18:25:10.913][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-08-31 18:25:10.913][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-08-31 18:25:10.914][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-08-31 18:25:10.914][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-08-31 18:25:10.915][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-08-31 18:25:10.915][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-08-31 18:25:10.916][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-08-31 18:25:10.916][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-08-31 18:25:10.917][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-08-31 18:25:10.917][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-08-31 18:25:10.917][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-08-31 18:25:10.918][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-08-31 18:25:10.918][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-08-31 18:25:10.918][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-08-31 18:25:10.919][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-08-31 18:25:10.919][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-08-31 18:25:10.920][initialize] This is biodb version 1.17.1.
biodb.DEBUG[2025-08-31 18:25:10.920][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-31 18:25:10.921][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.921][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.921][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.921][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[2025-08-31 18:25:10.922][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.922][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:10.922][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:10.923][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.924][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.925][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.926][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.926][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.926][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:10.927][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:10.927][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.927][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.927][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.928][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.928][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.928][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:10.929][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:10.929][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.929][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.929][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.930][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.930][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.930][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:10.930][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:10.931][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.931][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.931][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.931][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.931][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.932][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:10.932][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:10.932][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.932][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.933][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.933][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.933][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.933][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:10.934][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:10.934][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.934][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.934][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.934][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.935][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.935][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:10.935][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:10.935][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.936][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.936][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.936][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.936][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.936][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:10.937][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:10.937][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.937][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.937][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.938][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.938][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.938][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:10.938][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:10.939][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.939][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.939][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.939][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.939][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.940][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:10.940][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:10.940][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.940][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.941][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.941][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.941][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.941][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:10.941][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:10.942][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.942][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.942][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.942][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.943][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.943][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:10.943][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:10.943][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.943][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.944][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.944][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.944][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.944][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:10.945][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:10.945][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.945][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.945][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.945][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.946][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.946][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:10.946][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:10.946][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.947][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.947][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.947][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.947][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.947][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:10.948][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:10.948][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.948][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.948][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.949][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 18:25:10.949][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 18:25:10.949][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:10.949][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:10.949][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.950][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.950][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.950][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[2025-08-31 18:25:10.951][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-08-31 18:25:10.951][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-08-31 18:25:10.952][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-31 18:25:10.952][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-08-31 18:25:10.953][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-31 18:25:10.953][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-31 18:25:10.953][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-31 18:25:10.954][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-31 18:25:10.954][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-08-31 18:25:10.954][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-08-31 18:25:10.954][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-08-31 18:25:10.955][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-31 18:25:10.955][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-31 18:25:10.955][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-08-31 18:25:10.955][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-31 18:25:10.956][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-08-31 18:25:10.956][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-08-31 18:25:10.956][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-08-31 18:25:10.956][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-08-31 18:25:10.956][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-08-31 18:25:10.956][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-08-31 18:25:10.956][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-08-31 18:25:10.956][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-08-31 18:25:10.956][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-08-31 18:25:10.956][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-08-31 18:25:10.956][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-08-31 18:25:10.956][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-08-31 18:25:10.956][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-31 18:25:10.956][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-31 18:25:10.956][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-31 18:25:10.957][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-08-31 18:25:10.957][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-31 18:25:10.957][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-31 18:25:10.957][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-31 18:25:10.958][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-31 18:25:10.958][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-31 18:25:10.958][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-31 18:25:10.958][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-31 18:25:10.958][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-08-31 18:25:10.959][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-31 18:25:10.959][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-31 18:25:10.959][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-08-31 18:25:10.959][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-08-31 18:25:10.959][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-08-31 18:25:10.960][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-08-31 18:25:10.960][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-08-31 18:25:10.961][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-08-31 18:25:10.961][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-08-31 18:25:10.961][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-08-31 18:25:10.962][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-08-31 18:25:10.963][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-08-31 18:25:10.964][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-08-31 18:25:10.965][biodb::testThat]
biodb.INFO [2025-08-31 18:25:10.965][biodb::testThat] Running test function  test.chebi.encoding.issue.in.xml  (" ChEBI encoding issue in XML is handled. ").
biodb.INFO [2025-08-31 18:25:10.965][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-31 18:25:10.968][biodb::testThat]
sched.DEBUG[2025-08-31 18:25:10.969][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-08-31 18:25:10.970][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-31 18:25:10.972][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-08-31 18:25:10.972][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-08-31 18:25:10.973][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI ID&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-08-31 18:25:10.974][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-31 18:25:10.975][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/45b8073beb9f4a9f751edf98e80ca9dd.content.
sched.DEBUG[2025-08-31 18:25:10.975][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-31 18:25:10.976][private$loadEntries] Creating entries from ids [1]: "2571".
biodb.DEBUG[2025-08-31 18:25:10.981][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-31 18:25:10.981][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-31 18:25:10.984][FUN] Found encoding UTF-8 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2571.xml.
biodb.DEBUG[2025-08-31 18:25:10.985][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-31 18:25:10.985][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-31 18:25:10.985][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-31 18:25:10.986][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 18:25:10.986][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:10.986][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:10.988][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:10.988][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:10.989][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:10.989][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[2025-08-31 18:25:10.990][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:10.991][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:10.991][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.991][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.992][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:10.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:10.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.993][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 18:25:10.993][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 18:25:10.993][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.993][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.994][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 18:25:10.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 18:25:10.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.995][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 18:25:10.995][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 18:25:10.995][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.996][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.996][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 18:25:10.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 18:25:10.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.997][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 18:25:10.997][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 18:25:10.998][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.998][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.998][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 18:25:10.998][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 18:25:10.999][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:10.999][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:10.999][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-31 18:25:11.000][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-31 18:25:11.000][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:11.000][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:11.001][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-31 18:25:11.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-31 18:25:11.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:11.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:11.002][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 18:25:11.002][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:11.002][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:11.003][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:11.003][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 18:25:11.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 18:25:11.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:11.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:11.004][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:11.004][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:11.004][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:11.005][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:11.005][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:11.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 18:25:11.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:11.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:11.006][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-31 18:25:11.006][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 18:25:11.007][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:11.007][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:11.007][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-31 18:25:11.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 18:25:11.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:11.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:11.008][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 18:25:11.009][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 18:25:11.009][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:11.009][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:11.010][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 18:25:11.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 18:25:11.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:11.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:11.011][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 18:25:11.011][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 18:25:11.011][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:11.012][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:11.012][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 18:25:11.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 18:25:11.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:11.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:11.013][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:11.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:11.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:11.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:11.014][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:11.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:11.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:11.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:11.015][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:11.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:11.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:11.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:11.016][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 18:25:11.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 18:25:11.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:11.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:11.017][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:11.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:11.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:11.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:11.019][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:11.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:11.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:11.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:11.020][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:11.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:11.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:11.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:11.021][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:11.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:11.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:11.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:11.022][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:11.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:11.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:11.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 18:25:11.023][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 18:25:11.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 18:25:11.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 18:25:11.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 18:25:11.024][self$createEntryFromContent] Accession numbers: 2571.
biodb.INFO [2025-08-31 18:25:11.025][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-08-31 18:25:11.026][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-08-31 18:25:11.026][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-08-31 18:25:11.026][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 18:25:11.026][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 18:25:11.026][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 18:25:11.027][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 18:25:11.027][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 18:25:11.027][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 357 ]
> 
> proc.time()
   user  system elapsed 
  4.606   0.261   6.874

Example timings

biodbChebi.Rcheck/biodbChebi-Ex.timings

nameusersystemelapsed
ChebiConn0.6790.2310.920
ChebiEntry0.0820.0080.090