Multiple platform build/check report for BioC 3.21 - CHECK results for biodbChebi on merida1

Hostname	OS	Arch (*)	R version	Installed pkgs
nebbiolo1	Linux (Ubuntu 24.04.3 LTS)	x86_64	4.5.1 (2025-06-13) -- "Great Square Root"	4824
merida1	macOS 12.7.5 Monterey	x86_64	4.5.1 RC (2025-06-05 r88288) -- "Great Square Root"	4606
kjohnson1	macOS 13.6.6 Ventura	arm64	4.5.1 Patched (2025-06-14 r88325) -- "Great Square Root"	4547
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*

CHECK results for biodbChebi on merida1

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: 1.14.0

Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:biodbChebi.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings biodbChebi_1.14.0.tar.gz

StartedAt: 2025-09-09 00:31:49 -0400 (Tue, 09 Sep 2025)

EndedAt: 2025-09-09 00:34:13 -0400 (Tue, 09 Sep 2025)

EllapsedTime: 144.2 seconds

RetCode: 0

Status: OK

CheckDir: biodbChebi.Rcheck

Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:biodbChebi.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings biodbChebi_1.14.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-3.21-bioc/meat/biodbChebi.Rcheck’
* using R version 4.5.1 RC (2025-06-05 r88288)
* using platform: x86_64-apple-darwin20
* R was compiled by
    Apple clang version 14.0.0 (clang-1400.0.29.202)
    GNU Fortran (GCC) 14.2.0
* running under: macOS Monterey 12.7.6
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘biodbChebi/DESCRIPTION’ ... OK
* this is package ‘biodbChebi’ version ‘1.14.0’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘biodbChebi’ can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking code files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU (user + system) or elapsed time > 5s
           user system elapsed
ChebiConn 4.425  1.228   6.766
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘testthat.R’
 OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE

Status: OK

Installation output

biodbChebi.Rcheck/00install.out

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


* installing to library ‘/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library’
* installing *source* package ‘biodbChebi’ ...
** this is package ‘biodbChebi’ version ‘1.14.0’
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (biodbChebi)

Tests output

biodbChebi.Rcheck/tests/testthat.Rout


R version 4.5.1 RC (2025-06-05 r88288) -- "Great Square Root"
Copyright (C) 2025 The R Foundation for Statistical Computing
Platform: x86_64-apple-darwin20

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

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

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

> # vi: fdm=marker
> # Script needed to run testthat automatically from ‘R CMD check’. See
> # testthat::test_dir documentation.
> library(testthat)
> library(biodbChebi)
> Sys.setenv(TESTTHAT_REPORTER="summary")
> Sys.setenv(BIODB_LOG_DST="console")
> test_check("biodbChebi")
biodb.INFO [2025-09-09 00:33:23.912][biodb::testContext]
biodb.INFO [2025-09-09 00:33:23.917][biodb::testContext] ********************************************************************************
biodb.INFO [2025-09-09 00:33:23.918][biodb::testContext] Test context - Generic tests
biodb.INFO [2025-09-09 00:33:23.919][biodb::testContext] ********************************************************************************
biodb.INFO [2025-09-09 00:33:23.921][biodb::testContext]
biodb.INFO [2025-09-09 00:33:23.932][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.16.0.
biodb.DEBUG[2025-09-09 00:33:23.935][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-09-09 00:33:23.945][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-09 00:33:23.947][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-09-09 00:33:23.950][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-09-09 00:33:23.952][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:23.954][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:23.956][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:23.959][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-09-09 00:33:23.991][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-09-09 00:33:23.992][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:23.994][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:24.003][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:24.005][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-09-09 00:33:24.006][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-09-09 00:33:24.016][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:24.017][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:24.019][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:24.020][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-09-09 00:33:24.022][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-09-09 00:33:24.024][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-09-09 00:33:24.025][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:24.027][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:24.028][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:24.032][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-09-09 00:33:24.035][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-09-09 00:33:24.037][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-09-09 00:33:24.040][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:24.042][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:24.045][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:24.047][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-09-09 00:33:24.050][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-09-09 00:33:24.053][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:24.055][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:24.057][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[2025-09-09 00:33:24.060][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-09-09 00:33:24.062][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-09-09 00:33:24.065][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-09-09 00:33:24.067][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:24.070][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:24.072][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:24.073][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-09-09 00:33:24.075][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-09-09 00:33:24.076][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:24.077][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:24.079][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:24.080][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-09-09 00:33:24.082][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-09-09 00:33:24.085][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-09-09 00:33:24.087][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:24.089][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:24.091][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:24.094][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-09-09 00:33:24.095][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-09-09 00:33:24.097][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-09-09 00:33:24.100][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-09-09 00:33:24.102][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-09-09 00:33:24.104][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-09-09 00:33:24.105][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:24.106][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:24.114][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:24.116][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-09-09 00:33:24.117][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-09-09 00:33:24.120][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:24.121][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:24.123][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:24.125][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-09-09 00:33:24.127][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-09-09 00:33:24.129][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:24.131][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:24.133][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:24.135][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-09-09 00:33:24.139][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-09-09 00:33:24.141][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:24.144][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:24.146][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:24.149][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-09-09 00:33:24.153][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-09-09 00:33:24.155][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:24.157][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:24.159][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.DEBUG[2025-09-09 00:33:24.162][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-09-09 00:33:24.164][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-09-09 00:33:24.167][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:24.170][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:24.172][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:24.175][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-09-09 00:33:24.177][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-09-09 00:33:24.193][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-09-09 00:33:24.195][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:24.197][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:24.199][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:24.200][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-09-09 00:33:24.202][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-09-09 00:33:24.203][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-09-09 00:33:24.206][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:24.208][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:24.209][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:24.213][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-09-09 00:33:24.291][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-09 00:33:24.333][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-09-09 00:33:24.335][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-09 00:33:24.337][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-09 00:33:24.340][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-09 00:33:24.341][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-09 00:33:24.343][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-09 00:33:24.348][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-09 00:33:24.350][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-09-09 00:33:24.352][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-09 00:33:24.361][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-09 00:33:24.363][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-09-09 00:33:24.365][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-09 00:33:24.368][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-09 00:33:24.370][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-09 00:33:24.372][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-09 00:33:24.372][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-09 00:33:24.372][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-09 00:33:24.372][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-09-09 00:33:24.372][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-09-09 00:33:24.374][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-09 00:33:24.376][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-09 00:33:24.377][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-09 00:33:24.379][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-09 00:33:24.380][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-09 00:33:24.382][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-09 00:33:24.384][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-09 00:33:24.385][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-09 00:33:24.386][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-09 00:33:24.388][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-09 00:33:24.389][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-09 00:33:24.390][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-09 00:33:24.394][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-09-09 00:33:24.398][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-09 00:33:24.400][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-09-09 00:33:24.403][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-09 00:33:24.404][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-09 00:33:24.406][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-09 00:33:24.408][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-09 00:33:24.413][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-09 00:33:24.415][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-09 00:33:24.418][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-09-09 00:33:24.420][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-09 00:33:24.423][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-09 00:33:24.426][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-09-09 00:33:24.428][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-09 00:33:24.432][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-09 00:33:24.434][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-09 00:33:24.435][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-09 00:33:24.435][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-09 00:33:24.435][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-09 00:33:24.435][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-09-09 00:33:24.435][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-09-09 00:33:24.438][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-09 00:33:24.457][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-09 00:33:24.458][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-09 00:33:24.460][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-09 00:33:24.461][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-09 00:33:24.462][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-09 00:33:24.463][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-09 00:33:24.465][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-09 00:33:24.467][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-09 00:33:24.468][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-09 00:33:24.470][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-09 00:33:24.471][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-09 00:33:24.473][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-09-09 00:33:24.475][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-09-09 00:33:24.477][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-09-09 00:33:24.478][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-09 00:33:24.480][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-09 00:33:24.482][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-09 00:33:24.484][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-09 00:33:24.485][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-09 00:33:24.487][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-09 00:33:24.489][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-09-09 00:33:24.490][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-09 00:33:24.492][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-09-09 00:33:24.498][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-09-09 00:33:24.502][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-09 00:33:24.504][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-09 00:33:24.506][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-09 00:33:24.509][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-09-09 00:33:24.511][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-09 00:33:24.513][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-09 00:33:24.515][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-09 00:33:24.518][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-09 00:33:24.520][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-09 00:33:24.522][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-09 00:33:24.524][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-09 00:33:24.526][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-09 00:33:24.527][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-09 00:33:24.528][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-09 00:33:24.530][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-09 00:33:24.531][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-09 00:33:24.532][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-09-09 00:33:24.535][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-09-09 00:33:24.536][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-09-09 00:33:24.537][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-09 00:33:24.539][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-09 00:33:24.540][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-09 00:33:24.542][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-09 00:33:24.543][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-09 00:33:24.544][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-09 00:33:24.546][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-09-09 00:33:24.547][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-09 00:33:24.549][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-09-09 00:33:24.550][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-09-09 00:33:24.551][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-09 00:33:24.553][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-09 00:33:24.554][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-09 00:33:24.555][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-09-09 00:33:24.557][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-09 00:33:24.558][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-09 00:33:24.559][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-09 00:33:24.561][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-09 00:33:24.562][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-09 00:33:24.563][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-09 00:33:24.564][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-09 00:33:24.566][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-09 00:33:24.567][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-09 00:33:24.568][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-09 00:33:24.569][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-09 00:33:24.571][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-09 00:33:24.575][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-09 00:33:24.580][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:24.582][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:24.584][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:24.586][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:24.589][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:24.625][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:24.627][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:24.628][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:24.629][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:24.630][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:24.632][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:24.633][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[2025-09-09 00:33:24.634][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:24.635][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:24.637][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:24.638][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:24.639][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:24.641][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:24.642][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:24.645][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:24.646][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:24.647][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:24.649][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:24.650][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:24.652][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:24.654][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:24.656][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:24.657][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:24.658][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:24.659][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:24.660][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:24.665][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:24.669][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:24.671][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:24.673][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:24.675][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:24.677][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:24.680][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:24.681][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:24.683][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:24.684][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:24.685][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:24.686][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:24.687][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:24.688][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:24.690][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:24.691][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[2025-09-09 00:33:24.700][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:24.702][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:24.704][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:24.706][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:24.708][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:24.710][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:24.711][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:24.713][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:24.715][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:24.717][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:24.719][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:24.721][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:24.722][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:24.724][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:24.726][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:24.727][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:24.729][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:24.730][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:24.732][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:24.733][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:24.738][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:24.741][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:24.743][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:24.744][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:24.745][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:24.746][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:24.748][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:24.749][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:24.752][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:24.754][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[2025-09-09 00:33:24.757][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:24.759][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:24.761][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:24.763][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:24.765][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:24.767][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:24.770][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:24.772][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:24.775][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:24.777][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:24.779][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-09-09 00:33:24.785][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-09-09 00:33:24.787][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-09-09 00:33:24.789][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-09-09 00:33:24.791][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-09-09 00:33:24.793][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-09-09 00:33:24.795][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-09-09 00:33:24.797][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-09-09 00:33:24.799][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-09-09 00:33:24.801][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-09-09 00:33:24.803][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-09-09 00:33:24.806][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-09-09 00:33:24.809][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-09-09 00:33:24.811][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-09-09 00:33:24.816][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-09-09 00:33:24.818][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-09-09 00:33:24.823][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-09-09 00:33:24.825][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-09-09 00:33:24.828][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-09-09 00:33:24.830][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-09-09 00:33:24.832][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-09-09 00:33:24.834][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-09-09 00:33:24.836][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-09-09 00:33:24.838][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-09-09 00:33:24.841][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-09-09 00:33:24.843][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-09-09 00:33:24.845][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-09-09 00:33:24.847][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-09-09 00:33:24.849][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-09-09 00:33:24.853][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-09-09 00:33:24.856][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-09-09 00:33:24.858][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-09-09 00:33:24.860][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-09-09 00:33:24.863][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-09-09 00:33:24.866][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-09-09 00:33:24.870][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-09-09 00:33:24.873][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-09-09 00:33:24.877][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-09-09 00:33:24.880][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-09-09 00:33:24.885][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-09-09 00:33:24.887][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-09-09 00:33:24.892][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-09-09 00:33:24.895][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-09-09 00:33:24.897][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-09-09 00:33:24.899][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-09-09 00:33:24.901][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-09-09 00:33:24.903][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-09-09 00:33:24.904][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-09-09 00:33:24.907][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-09-09 00:33:24.909][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-09-09 00:33:24.911][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-09-09 00:33:24.913][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-09-09 00:33:24.915][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-09-09 00:33:24.918][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-09-09 00:33:24.920][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-09-09 00:33:24.922][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-09-09 00:33:24.925][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-09-09 00:33:24.928][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-09-09 00:33:24.932][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-09-09 00:33:24.934][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-09-09 00:33:24.936][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-09-09 00:33:24.938][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-09-09 00:33:24.941][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-09-09 00:33:24.944][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-09-09 00:33:24.946][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-09-09 00:33:24.947][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-09-09 00:33:24.949][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-09-09 00:33:24.951][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-09-09 00:33:24.953][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-09-09 00:33:24.954][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-09-09 00:33:24.956][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-09-09 00:33:24.958][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-09-09 00:33:24.960][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-09-09 00:33:24.961][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-09-09 00:33:24.963][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-09-09 00:33:24.965][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-09-09 00:33:24.967][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-09-09 00:33:24.971][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-09-09 00:33:24.975][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-09-09 00:33:24.979][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-09-09 00:33:24.981][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-09-09 00:33:24.984][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-09-09 00:33:24.987][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-09-09 00:33:25.001][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-09-09 00:33:25.005][initialize] This is biodb version 1.16.0.
biodb.DEBUG[2025-09-09 00:33:25.012][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-09 00:33:25.014][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:25.016][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:25.018][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:25.020][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:25.028][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:25.031][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:25.039][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:25.042][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:25.044][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:25.045][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:25.047][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:25.051][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:25.053][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:25.054][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:25.056][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:25.058][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:25.060][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:25.062][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:25.063][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:25.065][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:25.067][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:25.069][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:25.072][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:25.074][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:25.076][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:25.078][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:25.080][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:25.082][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:25.084][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:25.086][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:25.088][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:25.089][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:25.091][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:25.093][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:25.094][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:25.096][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:25.097][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:25.099][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:25.102][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:25.105][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:25.107][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:25.109][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:25.111][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:25.113][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:25.115][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:25.117][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:25.118][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:25.119][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:25.120][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:25.122][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:25.123][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:25.124][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:25.125][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:25.127][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:25.129][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:25.131][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:25.133][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:25.134][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:25.136][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:25.138][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:25.145][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:25.146][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:25.148][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:25.149][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:25.151][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:25.153][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:25.155][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:25.156][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:25.157][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:25.159][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:25.160][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:25.162][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:25.163][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:25.165][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:25.166][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:25.168][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:25.170][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:25.173][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:25.175][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:25.176][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:25.178][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:25.179][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:25.181][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:25.183][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:25.185][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:25.187][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:25.190][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:25.192][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.DEBUG[2025-09-09 00:33:25.194][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:25.197][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:25.200][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:25.202][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:25.204][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:25.206][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:25.209][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:25.211][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:25.213][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:25.215][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:25.216][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:25.217][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:25.218][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:25.219][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:25.220][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:25.222][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:25.223][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:25.224][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:25.225][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:25.226][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:25.228][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.DEBUG[2025-09-09 00:33:25.230][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:25.231][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:25.234][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:25.235][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:25.236][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:25.237][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:25.241][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:25.242][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:25.243][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:25.245][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:25.253][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:25.254][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:25.256][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:25.257][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.DEBUG[2025-09-09 00:33:25.261][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-09-09 00:33:25.279][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-09-09 00:33:25.282][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-09 00:33:25.283][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-09-09 00:33:25.284][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-09 00:33:25.286][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-09 00:33:25.287][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-09 00:33:25.288][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-09 00:33:25.290][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-09-09 00:33:25.293][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-09-09 00:33:25.296][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-09-09 00:33:25.298][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-09 00:33:25.300][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-09 00:33:25.301][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-09-09 00:33:25.302][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-09 00:33:25.305][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-09-09 00:33:25.305][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-09-09 00:33:25.305][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-09-09 00:33:25.305][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-09-09 00:33:25.305][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-09-09 00:33:25.305][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-09-09 00:33:25.305][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-09-09 00:33:25.305][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-09-09 00:33:25.305][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-09-09 00:33:25.305][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-09-09 00:33:25.305][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-09-09 00:33:25.308][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-09-09 00:33:25.310][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-09 00:33:25.310][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-09 00:33:25.310][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-09 00:33:25.312][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-09-09 00:33:25.313][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-09 00:33:25.314][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-09 00:33:25.316][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-09 00:33:25.317][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-09 00:33:25.319][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-09 00:33:25.320][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-09 00:33:25.322][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-09-09 00:33:25.322][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-09-09 00:33:25.324][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-09 00:33:25.326][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-09 00:33:25.328][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-09-09 00:33:25.329][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-09-09 00:33:25.329][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-09-09 00:33:25.338][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-09-09 00:33:25.341][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-09-09 00:33:25.344][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-09-09 00:33:25.347][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-09-09 00:33:25.357][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-09-09 00:33:25.361][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-09-09 00:33:25.428][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-09-09 00:33:25.430][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2025-09-09 00:33:25.436][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2025-09-09 00:33:25.441][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2025-09-09 00:33:25.448][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-09-09 00:33:25.450][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-09-09 00:33:25.452][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2025-09-09 00:33:25.453][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-09-09 00:33:25.468][biodb::testThat]
biodb.INFO [2025-09-09 00:33:25.476][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2025-09-09 00:33:25.478][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-09 00:33:25.479][biodb::testThat]
biodb.TRACE[2025-09-09 00:33:25.795][loadFileContents] Loaded 1 files from cache: [1]: "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2025-09-09 00:33:25.799][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-09 00:33:25.806][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-09 00:33:25.820][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:25.823][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:25.825][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:25.853][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:25.855][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:25.857][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:25.859][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.TRACE[2025-09-09 00:33:25.873][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:25.876][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:25.878][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:25.880][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:25.883][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:25.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:25.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:25.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:25.919][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-09 00:33:25.921][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-09 00:33:25.924][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:25.926][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:25.981][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-09 00:33:25.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-09 00:33:25.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:25.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:25.988][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-09 00:33:25.990][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-09 00:33:25.992][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:25.994][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:25.996][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-09 00:33:26.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-09 00:33:26.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:26.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:26.007][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-09 00:33:26.009][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-09 00:33:26.011][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:26.013][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:26.016][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-09 00:33:26.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-09 00:33:26.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:26.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:26.027][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-09 00:33:26.030][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-09 00:33:26.032][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:26.034][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:26.036][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-09 00:33:26.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-09 00:33:26.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:26.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:26.046][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-09 00:33:26.048][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-09 00:33:26.049][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:26.050][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:26.052][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-09 00:33:26.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-09 00:33:26.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:26.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:26.059][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-09 00:33:26.062][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:26.063][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:26.065][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:26.067][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-09 00:33:26.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:26.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:26.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:26.074][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:26.076][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:26.079][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:26.083][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:26.097][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:26.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:26.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:26.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:26.107][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-09 00:33:26.110][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-09 00:33:26.112][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:26.115][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:26.118][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-09 00:33:26.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-09 00:33:26.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:26.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:26.128][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-09 00:33:26.130][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-09 00:33:26.132][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:26.134][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:26.137][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-09 00:33:26.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-09 00:33:26.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:26.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:26.144][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-09 00:33:26.146][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-09 00:33:26.147][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:26.148][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:26.150][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-09 00:33:26.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-09 00:33:26.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:26.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:26.158][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:26.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:26.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:26.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:26.165][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:26.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:26.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:26.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:26.172][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:26.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:26.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:26.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:26.186][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:26.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:26.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:26.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:26.194][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:26.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:26.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:26.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:26.207][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:26.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:26.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:26.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:26.218][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:26.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:26.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:26.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:26.282][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:26.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:26.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:26.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:26.293][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:26.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:26.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:26.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:26.299][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:26.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:26.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:26.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:26.306][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2025-09-09 00:33:26.310][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-09 00:33:26.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-09 00:33:26.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:26.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:26.319][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-09 00:33:26.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-09 00:33:26.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:26.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:26.383][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-09 00:33:26.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-09 00:33:26.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:26.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:26.394][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-09 00:33:26.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-09 00:33:26.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:26.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:26.400][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:26.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:26.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:26.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:26.408][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:26.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:26.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:26.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:26.413][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-09-09 00:33:26.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-09-09 00:33:26.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:26.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:26.418][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-09-09 00:33:26.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-09-09 00:33:26.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:26.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:26.424][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-09-09 00:33:26.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-09-09 00:33:26.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:26.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:26.432][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-09-09 00:33:26.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-09-09 00:33:26.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:26.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:26.731][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:26.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:26.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:26.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:26.816][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:26.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:26.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:26.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:26.833][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:26.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:26.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:26.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:26.847][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:26.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:26.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:26.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:26.854][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:26.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:26.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:26.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:26.866][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:26.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:26.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:26.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:26.876][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:26.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:26.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:26.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:26.883][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:26.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:26.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:26.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:26.896][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:26.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:26.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:26.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:26.901][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:26.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:26.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:26.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:26.908][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:26.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:26.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:26.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:27.109][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:27.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:27.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:27.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:27.117][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:27.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:27.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:27.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:27.127][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:27.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:27.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:27.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:27.146][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:27.148][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:27.150][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:27.151][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:27.153][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:27.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:27.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:27.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:27.188][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:27.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:27.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:27.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:27.196][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:27.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:27.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:27.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:27.213][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:27.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:27.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:27.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:27.220][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:27.222][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:27.224][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:27.226][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:27.229][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:27.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:27.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:27.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:27.268][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-09 00:33:27.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-09 00:33:27.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:27.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:27.276][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-09 00:33:27.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-09 00:33:27.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:27.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:27.283][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-09 00:33:27.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-09 00:33:27.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:27.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:27.300][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-09 00:33:27.303][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-09 00:33:27.305][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:27.307][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:27.309][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-09 00:33:27.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-09 00:33:27.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:27.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:27.335][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-09 00:33:27.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-09 00:33:27.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:27.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:27.344][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-09 00:33:27.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-09 00:33:27.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:27.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:27.358][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-09 00:33:27.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-09 00:33:27.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:27.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:27.364][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-09 00:33:27.365][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-09 00:33:27.366][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:27.368][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:27.369][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-09 00:33:27.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-09 00:33:27.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:27.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:27.418][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:27.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:27.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:27.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:27.424][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:27.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:27.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:27.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:27.433][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:27.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:27.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:27.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:27.454][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:27.456][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:27.458][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:27.460][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:27.463][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:27.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:27.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:27.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:27.488][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:27.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:27.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:27.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:27.497][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:27.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:27.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:27.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:27.515][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:27.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:27.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:27.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:27.526][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:27.529][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:27.533][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:27.536][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:27.539][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:27.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:27.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:27.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:27.566][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-09 00:33:27.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-09 00:33:27.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:27.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:27.580][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-09 00:33:27.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-09 00:33:27.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:27.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:27.588][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-09 00:33:27.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-09 00:33:27.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:27.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:27.604][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-09 00:33:27.606][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-09 00:33:27.607][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:27.609][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:27.611][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-09 00:33:27.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-09 00:33:27.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:27.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:27.636][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-09-09 00:33:27.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-09 00:33:27.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:27.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:27.645][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-09-09 00:33:27.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-09 00:33:27.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:27.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:27.653][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-09-09 00:33:27.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-09 00:33:27.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:27.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:27.663][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-09-09 00:33:27.666][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-09 00:33:27.669][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:27.672][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:27.674][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-09-09 00:33:27.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-09 00:33:27.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:27.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:27.697][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-09 00:33:27.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-09 00:33:27.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:27.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:27.706][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-09 00:33:27.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-09 00:33:27.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:27.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:27.713][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-09 00:33:27.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-09 00:33:27.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:27.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:27.722][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-09 00:33:27.724][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-09 00:33:27.726][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:27.728][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:27.729][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-09 00:33:27.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-09 00:33:27.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:27.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:27.764][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-09 00:33:27.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-09 00:33:27.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:27.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:27.774][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-09 00:33:27.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-09 00:33:27.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:27.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:27.784][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-09 00:33:27.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-09 00:33:27.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:27.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:27.793][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-09 00:33:27.795][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-09 00:33:27.796][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:27.798][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:27.799][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-09 00:33:27.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-09 00:33:27.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:27.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:27.821][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-09 00:33:27.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-09 00:33:27.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:27.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:27.831][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-09 00:33:27.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-09 00:33:27.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:27.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:27.839][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-09 00:33:27.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-09 00:33:27.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:27.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:27.848][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-09 00:33:27.850][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-09 00:33:27.852][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:27.855][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:27.857][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-09 00:33:27.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-09 00:33:27.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:27.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:27.887][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-09 00:33:27.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-09 00:33:27.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:27.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:27.895][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-09 00:33:27.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-09 00:33:27.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:27.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:27.905][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-09 00:33:27.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-09 00:33:27.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:27.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:27.919][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-09 00:33:27.920][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-09 00:33:27.921][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:27.924][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:27.925][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-09 00:33:27.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-09 00:33:27.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:27.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:27.950][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:27.952][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:27.955][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:27.957][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:27.967][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-09 00:33:27.970][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-09 00:33:27.980][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:27.983][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:28.030][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-09 00:33:28.032][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-09 00:33:28.035][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:28.036][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:28.046][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-09 00:33:28.048][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-09 00:33:28.049][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:28.051][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:28.066][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-09 00:33:28.069][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-09 00:33:28.072][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:28.074][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:28.085][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-09 00:33:28.087][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-09 00:33:28.089][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:28.091][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:28.101][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:28.103][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:28.104][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:28.107][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:28.118][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:28.120][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:28.122][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:28.132][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:28.180][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-09-09 00:33:28.182][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-09 00:33:28.184][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:28.185][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:28.195][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-09 00:33:28.197][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-09 00:33:28.198][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:28.200][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:28.208][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-09 00:33:28.209][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-09 00:33:28.212][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:28.215][ef$get] fields variable is a list.
biodb.INFO [2025-09-09 00:33:28.232][biodb::testThat]
biodb.INFO [2025-09-09 00:33:28.234][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2025-09-09 00:33:28.236][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-09 00:33:28.238][biodb::testThat]
biodb.DEBUG[2025-09-09 00:33:28.266][private$loadEntries] Creating entries from ids [1]: "15440".
biodb.DEBUG[2025-09-09 00:33:28.275][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-09-09 00:33:28.280][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15440".
biodb.TRACE[2025-09-09 00:33:28.282][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-09-09 00:33:28.284][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15440.xml".
biodb.DEBUG[2025-09-09 00:33:28.285][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-09 00:33:28.350][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-09 00:33:28.352][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-09 00:33:28.356][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:28.358][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:28.360][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:28.369][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:28.372][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:28.374][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:28.376][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:28.381][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:28.384][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:28.386][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:28.388][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:28.391][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:28.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:28.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:28.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:28.445][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-09 00:33:28.447][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-09 00:33:28.450][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:28.453][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:28.456][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-09 00:33:28.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-09 00:33:28.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:28.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:28.466][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-09 00:33:28.468][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-09 00:33:28.470][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:28.472][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:28.474][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-09 00:33:28.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-09 00:33:28.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:28.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:28.482][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-09 00:33:28.484][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-09 00:33:28.486][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:28.488][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:28.491][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-09 00:33:28.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-09 00:33:28.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:28.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:28.498][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-09 00:33:28.501][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-09 00:33:28.502][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:28.504][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:28.506][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-09 00:33:28.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-09 00:33:28.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:28.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:28.513][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-09 00:33:28.515][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-09 00:33:28.516][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:28.517][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:28.520][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-09 00:33:28.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-09 00:33:28.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:28.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:28.529][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-09 00:33:28.532][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:28.534][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:28.536][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:28.539][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-09 00:33:28.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:28.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:28.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:28.548][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:28.551][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:28.553][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:28.555][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:28.557][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:28.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:28.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:28.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:28.563][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-09 00:33:28.565][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-09 00:33:28.566][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:28.567][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:28.569][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-09 00:33:28.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-09 00:33:28.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:28.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:28.574][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-09 00:33:28.576][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-09 00:33:28.577][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:28.578][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:28.580][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-09 00:33:28.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-09 00:33:28.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:28.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:28.604][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-09 00:33:28.607][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-09 00:33:28.609][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:28.611][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:28.614][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-09 00:33:28.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-09 00:33:28.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:28.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:28.626][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:28.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:28.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:28.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:28.634][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:28.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:28.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:28.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:28.643][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:28.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:28.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:28.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:28.652][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:28.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:28.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:28.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:28.660][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:28.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:28.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:28.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:28.669][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:28.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:28.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:28.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:28.680][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:28.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:28.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:28.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:28.690][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:28.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:28.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:28.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:28.700][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:28.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:28.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:28.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:28.709][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:28.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:28.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:28.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:28.718][self$createEntryFromContent] Accession numbers: 15440.
biodb.TRACE[2025-09-09 00:33:28.720][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2025-09-09 00:33:28.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2025-09-09 00:33:28.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:28.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:28.729][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2025-09-09 00:33:28.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2025-09-09 00:33:28.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:28.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:28.737][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2025-09-09 00:33:28.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2025-09-09 00:33:28.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:28.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-09-09 00:33:28.762][biodb::testThat]
biodb.INFO [2025-09-09 00:33:28.765][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2025-09-09 00:33:28.766][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-09 00:33:28.768][biodb::testThat]
biodb.TRACE[2025-09-09 00:33:28.774][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-09 00:33:28.776][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-09 00:33:28.782][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:28.784][ef$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:28.787][function(conn, opt)] Testing searchForEntries() with entry "15440" and field "name".
biodb.TRACE[2025-09-09 00:33:28.882][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-09 00:33:28.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-09 00:33:28.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:28.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:28.891][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-09 00:33:28.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-09 00:33:28.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:28.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:28.900][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-09 00:33:28.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-09 00:33:28.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:28.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:28.913][function(conn, opt)] With value "squalene".
biodb.DEBUG[2025-09-09 00:33:28.922][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2025-09-09 00:33:28.985][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-09-09 00:33:29.024][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2025-09-09 00:33:29.028][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-09-09 00:33:29.032][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2025-09-09 00:33:29.082][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".
biodb.DEBUG[2025-09-09 00:33:29.091][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-09-09 00:33:29.095][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-09-09 00:33:29.098][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-09-09 00:33:29.401][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-09-09 00:33:29.405][function(conn, opt)] With found IDs [1]: "15440".
biodb.TRACE[2025-09-09 00:33:29.437][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:29.440][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:29.442][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:29.444][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:29.446][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:29.447][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:29.449][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:29.451][ef$get] fields variable is a list.
biodb.INFO [2025-09-09 00:33:29.460][biodb::testThat]
biodb.INFO [2025-09-09 00:33:29.464][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2025-09-09 00:33:29.468][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-09 00:33:29.469][biodb::testThat]
biodb.TRACE[2025-09-09 00:33:29.530][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-09 00:33:29.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-09 00:33:29.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:29.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:29.538][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-09 00:33:29.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-09 00:33:29.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:29.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:29.544][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-09 00:33:29.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-09 00:33:29.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:29.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:29.657][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".
biodb.DEBUG[2025-09-09 00:33:29.663][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-09-09 00:33:29.667][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-09-09 00:33:29.672][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-09-09 00:33:29.674][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.INFO [2025-09-09 00:33:29.723][biodb::testThat]
biodb.INFO [2025-09-09 00:33:29.725][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2025-09-09 00:33:29.727][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-09 00:33:29.729][biodb::testThat]
biodb.TRACE[2025-09-09 00:33:29.773][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-09 00:33:29.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-09 00:33:29.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:29.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:29.780][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-09 00:33:29.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-09 00:33:29.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:29.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:29.785][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-09 00:33:29.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-09 00:33:29.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:29.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:29.790][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-09 00:33:29.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-09 00:33:29.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:29.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:29.798][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:29.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:29.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:29.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:29.807][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:29.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:29.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:29.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:29.816][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-09-09 00:33:29.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-09-09 00:33:29.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:29.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:29.829][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-09-09 00:33:29.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-09-09 00:33:29.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:29.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:29.834][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-09-09 00:33:29.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-09-09 00:33:29.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:29.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:29.842][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-09-09 00:33:29.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-09-09 00:33:29.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:29.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:29.891][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-09 00:33:29.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-09 00:33:29.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:29.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:29.901][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-09 00:33:29.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-09 00:33:29.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:29.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:29.910][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-09 00:33:29.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-09 00:33:29.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:29.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:29.918][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-09 00:33:29.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-09 00:33:29.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:29.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:29.924][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:29.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:29.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:29.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:29.932][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:29.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:29.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:29.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:29.939][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-09-09 00:33:29.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-09-09 00:33:29.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:29.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:29.948][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-09-09 00:33:29.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-09-09 00:33:29.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:29.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:29.960][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-09-09 00:33:29.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-09-09 00:33:29.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:29.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:29.972][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-09-09 00:33:29.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-09-09 00:33:29.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:29.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-09-09 00:33:30.019][biodb::testThat]
biodb.INFO [2025-09-09 00:33:30.020][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2025-09-09 00:33:30.021][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-09 00:33:30.023][biodb::testThat]
biodb.INFO [2025-09-09 00:33:30.042][biodb::testThat]
biodb.INFO [2025-09-09 00:33:30.044][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2025-09-09 00:33:30.045][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-09 00:33:30.047][biodb::testThat]
biodb.INFO [2025-09-09 00:33:30.068][biodb::testThat]
biodb.INFO [2025-09-09 00:33:30.070][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2025-09-09 00:33:30.073][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-09 00:33:30.075][biodb::testThat]
biodb.DEBUG[2025-09-09 00:33:30.082][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
biodb.DEBUG[2025-09-09 00:33:30.923][getUrlContent] Use RCurl for downloading content of URL https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440.
biodb.INFO [2025-09-09 00:33:31.692][biodb::testThat]
biodb.INFO [2025-09-09 00:33:31.695][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2025-09-09 00:33:31.697][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-09 00:33:31.700][biodb::testThat]
biodb.DEBUG[2025-09-09 00:33:32.103][getUrlContent] Use RCurl for downloading content of URL https://www.ebi.ac.uk/chebi/displayImage.do?defaultImage=true&imageIndex=0&chebiId=15440&dimensions=400.
biodb.TRACE[2025-09-09 00:33:32.522][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-09 00:33:32.524][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-09 00:33:32.527][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:32.529][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:32.531][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:32.534][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:32.536][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:32.538][ef$get] fields variable is a list.
biodb.INFO [2025-09-09 00:33:32.542][biodb::testThat]
biodb.INFO [2025-09-09 00:33:32.544][biodb::testThat] Running test function  test.searchCompound  (" We can search for a compound ").
biodb.INFO [2025-09-09 00:33:32.546][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-09 00:33:32.547][biodb::testThat]
biodb.TRACE[2025-09-09 00:33:32.589][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-09 00:33:32.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-09 00:33:32.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:32.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:32.602][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-09 00:33:32.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-09 00:33:32.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:32.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:32.611][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-09 00:33:32.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-09 00:33:32.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:32.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:32.784][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".
biodb.DEBUG[2025-09-09 00:33:32.789][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-09-09 00:33:32.793][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-09-09 00:33:32.796][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-09-09 00:33:32.801][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-09-09 00:33:32.955][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".
biodb.DEBUG[2025-09-09 00:33:32.963][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-09-09 00:33:32.967][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-09-09 00:33:32.970][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-09-09 00:33:32.974][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.TRACE[2025-09-09 00:33:33.010][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-09-09 00:33:33.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-09-09 00:33:33.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:33.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:33.059][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:33.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:33.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:33.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:33.076][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:33.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:33.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:33.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:33.083][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:33.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:33.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:33.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:33.089][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:33.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:33.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:33.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:33.098][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:33.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:33.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:33.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:33.114][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".
biodb.DEBUG[2025-09-09 00:33:33.154][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-09-09 00:33:33.157][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2025-09-09 00:33:33.161][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-09-09 00:33:33.245][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2025-09-09 00:33:33.274][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:33.277][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:33.280][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:33.294][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:33.297][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:33.300][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:33.302][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:33.305][private$loadEntries] Creating entries from ids [1]: "192288".
biodb.DEBUG[2025-09-09 00:33:33.411][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-09-09 00:33:33.462][cch$loadFileContent] Trying to load 1 files from cache: [1]: "192288".
biodb.TRACE[2025-09-09 00:33:33.590][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-09-09 00:33:33.602][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/192288.xml".
biodb.DEBUG[2025-09-09 00:33:33.606][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-09 00:33:33.609][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-09 00:33:33.613][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-09 00:33:33.617][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:33.619][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:33.621][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:33.632][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:33.680][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:33.684][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:33.687][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:33.692][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:33.695][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:33.698][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:33.701][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:33.704][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:33.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:33.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:33.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:33.715][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-09 00:33:33.718][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-09 00:33:33.721][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:33.723][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:33.727][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-09 00:33:33.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-09 00:33:33.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:33.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:33.747][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-09 00:33:33.749][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-09 00:33:33.754][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:33.756][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:33.758][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-09 00:33:33.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-09 00:33:33.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:33.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:33.801][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-09 00:33:33.804][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-09 00:33:33.806][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:33.808][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:33.811][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-09 00:33:33.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-09 00:33:33.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:33.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:33.821][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-09 00:33:33.824][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-09 00:33:33.827][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:33.829][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:33.833][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-09 00:33:33.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-09 00:33:33.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:33.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:33.843][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-09 00:33:33.846][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-09 00:33:33.852][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:33.854][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:33.856][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-09 00:33:33.858][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:33.860][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:33.862][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:33.863][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-09 00:33:33.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:33.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:33.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:33.899][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:33.903][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:33.905][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:33.907][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:33.910][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:33.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:33.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:33.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:33.920][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-09 00:33:33.922][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-09 00:33:33.925][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:33.927][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:33.930][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-09 00:33:33.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-09 00:33:33.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:33.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:33.941][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-09 00:33:33.943][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-09 00:33:33.951][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:33.953][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:33.994][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-09 00:33:34.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-09 00:33:34.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:34.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:34.008][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-09 00:33:34.011][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-09 00:33:34.014][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:34.016][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:34.020][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-09 00:33:34.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-09 00:33:34.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:34.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:34.032][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:34.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:34.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:34.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:34.044][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:34.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:34.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:34.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:34.058][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:34.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:34.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:34.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:34.067][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:34.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:34.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:34.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:34.124][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:34.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:34.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:34.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:34.136][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:34.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:34.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:34.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:34.148][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:34.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:34.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:34.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:34.165][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:34.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:34.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:34.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:34.179][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:34.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:34.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:34.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:34.201][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:34.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:34.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:34.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:34.217][self$createEntryFromContent] Accession numbers: 192288.
biodb.TRACE[2025-09-09 00:33:34.239][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:34.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:34.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:34.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:34.250][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:34.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:34.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:34.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:34.260][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:34.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:34.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:34.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:34.270][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".
biodb.DEBUG[2025-09-09 00:33:34.339][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-09-09 00:33:34.358][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2025-09-09 00:33:34.362][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-09-09 00:33:34.366][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2025-09-09 00:33:34.409][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:34.411][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:34.414][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:34.424][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:34.426][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:34.428][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:34.430][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.TRACE[2025-09-09 00:33:34.432][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:34.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:34.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:34.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:34.495][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:34.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:34.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:34.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:34.507][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:34.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:34.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:34.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:34.523][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:34.524][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:34.528][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:34.538][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:34.540][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:34.542][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:34.544][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:34.547][private$loadEntries] Creating entries from ids [1]: "209892".
biodb.DEBUG[2025-09-09 00:33:34.549][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-09-09 00:33:34.553][cch$loadFileContent] Trying to load 1 files from cache: [1]: "209892".
biodb.TRACE[2025-09-09 00:33:34.788][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-09-09 00:33:34.950][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/209892.xml".
biodb.DEBUG[2025-09-09 00:33:34.953][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-09 00:33:34.956][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-09 00:33:34.959][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-09 00:33:34.963][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:34.965][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:34.967][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:34.979][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:34.981][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:34.983][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:34.985][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:34.990][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:34.992][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:34.994][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:34.996][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:34.998][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:35.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:35.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:35.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:35.011][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-09 00:33:35.019][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-09 00:33:35.039][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:35.044][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:35.053][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-09 00:33:35.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-09 00:33:35.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:35.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:35.063][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-09 00:33:35.066][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-09 00:33:35.068][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:35.072][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:35.075][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-09 00:33:35.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-09 00:33:35.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:35.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:35.086][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-09 00:33:35.089][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-09 00:33:35.091][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:35.093][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:35.096][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-09 00:33:35.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-09 00:33:35.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:35.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:35.111][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-09 00:33:35.119][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-09 00:33:35.139][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:35.145][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:35.147][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-09 00:33:35.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-09 00:33:35.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:35.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:35.158][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-09 00:33:35.161][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-09 00:33:35.164][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:35.167][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:35.170][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-09 00:33:35.172][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:35.175][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:35.177][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:35.180][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-09 00:33:35.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:35.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:35.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:35.191][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:35.193][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:35.197][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:35.199][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:35.201][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:35.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:35.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:35.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:35.213][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-09 00:33:35.233][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-09 00:33:35.236][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:35.244][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:35.248][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-09 00:33:35.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-09 00:33:35.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:35.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:35.258][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-09 00:33:35.260][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-09 00:33:35.263][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:35.265][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:35.268][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-09 00:33:35.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-09 00:33:35.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:35.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:35.278][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-09 00:33:35.280][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-09 00:33:35.282][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:35.291][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:35.294][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-09 00:33:35.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-09 00:33:35.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:35.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:35.302][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:35.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:35.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:35.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:35.312][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:35.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:35.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:35.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:35.347][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:35.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:35.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:35.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:35.356][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:35.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:35.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:35.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:35.365][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:35.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:35.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:35.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:35.374][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:35.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:35.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:35.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:35.383][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:35.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:35.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:35.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:35.392][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:35.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:35.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:35.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:35.399][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:35.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:35.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:35.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:35.408][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:35.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:35.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:35.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:35.423][self$createEntryFromContent] Accession numbers: 209892.
biodb.TRACE[2025-09-09 00:33:35.431][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:35.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:35.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:35.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:35.448][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:35.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:35.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:35.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:35.456][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:35.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:35.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:35.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:35.513][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".
biodb.DEBUG[2025-09-09 00:33:35.520][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-09-09 00:33:35.524][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-09-09 00:33:35.527][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-09-09 00:33:35.531][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-09-09 00:33:35.537][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:35.539][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:35.540][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:35.549][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:35.553][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:35.556][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:35.558][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:35.560][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:35.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:35.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:35.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:35.569][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:35.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:35.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:35.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:35.578][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:35.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:35.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:35.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:35.586][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:35.588][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:35.590][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:35.603][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:35.606][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:35.608][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:35.611][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:35.612][private$loadEntries] Creating entries from ids [1]: "26747".
biodb.DEBUG[2025-09-09 00:33:35.615][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-09-09 00:33:35.619][cch$loadFileContent] Trying to load 1 files from cache: [1]: "26747".
biodb.TRACE[2025-09-09 00:33:35.624][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-09-09 00:33:35.817][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26747.xml".
biodb.DEBUG[2025-09-09 00:33:35.819][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-09 00:33:35.822][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-09 00:33:35.825][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-09 00:33:35.829][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:35.831][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:35.834][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:35.848][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:35.850][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:35.852][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:35.853][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:35.858][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:35.862][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:35.864][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:35.866][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:35.873][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:35.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:35.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:35.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:35.893][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-09 00:33:35.897][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-09 00:33:35.899][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:35.901][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:35.903][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-09 00:33:35.906][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-09 00:33:35.909][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:35.912][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:35.915][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-09 00:33:35.918][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-09 00:33:35.919][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:35.921][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:35.924][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-09 00:33:35.927][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-09 00:33:35.929][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:35.931][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:35.935][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-09 00:33:35.938][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-09 00:33:35.940][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:35.943][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:35.945][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-09 00:33:35.947][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:35.948][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:35.950][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:35.951][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:35.953][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:35.956][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:35.958][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:35.960][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-09 00:33:35.962][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-09 00:33:35.964][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:35.966][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:35.969][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-09 00:33:35.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-09 00:33:35.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:35.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:35.988][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-09 00:33:35.990][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-09 00:33:35.993][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:35.995][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:35.997][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-09 00:33:36.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-09 00:33:36.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:36.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:36.008][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-09 00:33:36.011][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-09 00:33:36.013][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:36.016][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:36.020][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:36.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:36.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:36.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:36.031][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:36.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:36.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:36.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:36.039][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:36.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:36.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:36.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:36.046][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:36.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:36.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:36.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:36.056][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:36.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:36.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:36.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:36.066][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:36.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:36.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:36.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:36.080][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:36.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:36.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:36.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:36.090][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:36.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:36.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:36.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:36.100][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:36.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:36.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:36.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:36.109][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:36.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:36.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:36.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:36.117][self$createEntryFromContent] Accession numbers: 26747.
biodb.TRACE[2025-09-09 00:33:36.120][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:36.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:36.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:36.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:36.168][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:36.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:36.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:36.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:36.182][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:36.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:36.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:36.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:36.188][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:36.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:36.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:36.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:36.198][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:36.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:36.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:36.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:36.208][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:36.210][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:36.212][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:36.223][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:36.226][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:36.228][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:36.229][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:36.231][private$loadEntries] Creating entries from ids [1]: "59285".
biodb.DEBUG[2025-09-09 00:33:36.232][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-09-09 00:33:36.234][cch$loadFileContent] Trying to load 1 files from cache: [1]: "59285".
biodb.TRACE[2025-09-09 00:33:36.464][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-09-09 00:33:36.471][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/59285.xml".
biodb.DEBUG[2025-09-09 00:33:36.474][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-09 00:33:36.478][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-09 00:33:36.480][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-09 00:33:36.484][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:36.486][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:36.488][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:36.500][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:36.502][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:36.504][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:36.506][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:36.511][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:36.513][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:36.515][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:36.516][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:36.518][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:36.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:36.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:36.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:36.523][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-09 00:33:36.525][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-09 00:33:36.528][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:36.529][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:36.531][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-09 00:33:36.533][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-09 00:33:36.535][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:36.537][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:36.540][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-09 00:33:36.558][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-09 00:33:36.560][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:36.561][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:36.564][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-09 00:33:36.565][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-09 00:33:36.568][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:36.571][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:36.574][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-09 00:33:36.577][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-09 00:33:36.579][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:36.581][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:36.585][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-09 00:33:36.588][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:36.590][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:36.593][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:36.595][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:36.597][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:36.599][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:36.602][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:36.604][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-09 00:33:36.607][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-09 00:33:36.609][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:36.611][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:36.613][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-09 00:33:36.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-09 00:33:36.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:36.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:36.621][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-09 00:33:36.624][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-09 00:33:36.625][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:36.627][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:36.635][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-09 00:33:36.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-09 00:33:36.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:36.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:36.661][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-09 00:33:36.663][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-09 00:33:36.665][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:36.668][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:36.672][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:36.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:36.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:36.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:36.681][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:36.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:36.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:36.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:36.691][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:36.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:36.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:36.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:36.701][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:36.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:36.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:36.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:36.710][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:36.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:36.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:36.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:36.716][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:36.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:36.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:36.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:36.724][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:36.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:36.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:36.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:36.732][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:36.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:36.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:36.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:36.757][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:36.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:36.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:36.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:36.764][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:36.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:36.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:36.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:36.772][self$createEntryFromContent] Accession numbers: 59285.
biodb.TRACE[2025-09-09 00:33:36.775][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:36.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:36.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:36.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:36.786][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:36.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:36.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:36.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:36.796][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:36.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:36.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:36.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:36.806][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:36.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:36.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:36.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:36.812][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:36.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:36.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:36.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:36.820][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:36.822][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:36.824][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:36.845][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:36.847][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:36.854][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:36.856][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:36.858][private$loadEntries] Creating entries from ids [1]: "75174".
biodb.DEBUG[2025-09-09 00:33:36.860][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-09-09 00:33:36.863][cch$loadFileContent] Trying to load 1 files from cache: [1]: "75174".
biodb.TRACE[2025-09-09 00:33:36.871][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-09-09 00:33:36.875][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75174.xml".
biodb.DEBUG[2025-09-09 00:33:36.878][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-09 00:33:36.880][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-09 00:33:36.883][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-09 00:33:36.887][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:36.889][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:36.892][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:36.903][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:36.906][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:36.914][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:36.917][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:36.922][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:36.924][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:36.926][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:36.928][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:36.931][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:36.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:36.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:36.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:36.954][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-09 00:33:36.956][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-09 00:33:36.958][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:36.960][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:36.963][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-09 00:33:36.965][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-09 00:33:36.967][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:36.969][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:36.972][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-09 00:33:36.974][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-09 00:33:36.975][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:36.976][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:36.978][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-09 00:33:36.980][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-09 00:33:36.982][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:36.985][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:36.988][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-09 00:33:36.991][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-09 00:33:36.994][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:36.996][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:37.000][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-09 00:33:37.003][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:37.006][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:37.008][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:37.009][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:37.011][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:37.013][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:37.015][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:37.017][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-09 00:33:37.019][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-09 00:33:37.021][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:37.024][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:37.028][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-09 00:33:37.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-09 00:33:37.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:37.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:37.038][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-09 00:33:37.043][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-09 00:33:37.045][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:37.048][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:37.052][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-09 00:33:37.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-09 00:33:37.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:37.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:37.067][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-09 00:33:37.069][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-09 00:33:37.071][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:37.073][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:37.075][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:37.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:37.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:37.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:37.085][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:37.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:37.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:37.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:37.094][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:37.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:37.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:37.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:37.102][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:37.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:37.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:37.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:37.112][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:37.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:37.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:37.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:37.120][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:37.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:37.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:37.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:37.128][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:37.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:37.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:37.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:37.136][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:37.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:37.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:37.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:37.144][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:37.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:37.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:37.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:37.164][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:37.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:37.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:37.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:37.178][self$createEntryFromContent] Accession numbers: 75174.
biodb.TRACE[2025-09-09 00:33:37.179][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:37.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:37.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:37.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:37.185][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:37.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:37.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:37.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:37.193][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:37.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:37.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:37.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:37.201][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:37.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:37.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:37.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:37.211][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:37.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:37.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:37.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:37.219][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:37.222][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:37.223][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:37.235][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:37.236][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:37.237][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:37.239][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:37.240][private$loadEntries] Creating entries from ids [1]: "15441".
biodb.DEBUG[2025-09-09 00:33:37.242][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-09-09 00:33:37.244][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15441".
biodb.TRACE[2025-09-09 00:33:37.249][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-09-09 00:33:37.561][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15441.xml".
biodb.DEBUG[2025-09-09 00:33:37.564][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-09 00:33:37.567][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-09 00:33:37.575][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-09 00:33:37.579][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:37.581][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:37.584][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:37.594][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:37.596][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:37.598][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:37.600][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:37.605][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:37.608][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:37.611][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:37.613][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:37.616][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:37.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:37.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:37.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:37.625][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-09 00:33:37.628][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-09 00:33:37.629][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:37.631][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:37.633][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-09 00:33:37.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-09 00:33:37.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:37.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:37.643][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-09 00:33:37.645][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-09 00:33:37.676][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:37.678][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:37.680][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-09 00:33:37.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-09 00:33:37.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:37.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:37.691][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-09 00:33:37.693][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-09 00:33:37.695][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:37.698][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:37.701][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-09 00:33:37.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-09 00:33:37.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:37.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:37.710][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-09 00:33:37.713][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-09 00:33:37.716][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:37.718][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:37.720][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-09 00:33:37.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-09 00:33:37.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:37.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:37.738][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-09 00:33:37.740][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-09 00:33:37.742][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:37.744][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:37.747][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-09 00:33:37.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-09 00:33:37.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:37.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:37.755][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-09 00:33:37.757][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:37.759][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:37.760][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:37.762][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-09 00:33:37.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:37.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:37.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:37.782][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:37.785][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:37.786][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:37.787][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:37.789][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:37.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:37.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:37.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:37.794][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-09 00:33:37.796][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-09 00:33:37.798][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:37.801][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:37.804][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-09 00:33:37.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-09 00:33:37.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:37.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:37.815][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-09 00:33:37.818][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-09 00:33:37.820][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:37.823][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:37.825][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-09 00:33:37.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-09 00:33:37.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:37.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:37.836][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-09 00:33:37.839][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-09 00:33:37.841][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:37.842][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:37.844][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-09 00:33:37.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-09 00:33:37.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:37.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:37.852][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:37.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:37.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:37.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:37.858][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:37.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:37.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:37.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:37.863][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:37.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:37.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:37.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:37.869][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:37.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:37.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:37.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:37.879][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:37.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:37.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:37.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:37.892][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:37.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:37.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:37.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:37.900][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:37.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:37.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:37.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:37.910][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:37.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:37.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:37.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:37.920][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:37.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:37.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:37.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:37.928][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:37.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:37.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:37.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:37.937][self$createEntryFromContent] Accession numbers: 15441.
biodb.TRACE[2025-09-09 00:33:37.940][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:37.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:37.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:37.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:37.948][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:37.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:37.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:37.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:37.963][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:37.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:37.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:37.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:37.968][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:37.970][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:37.971][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:37.979][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:37.981][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:37.983][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:37.985][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[2025-09-09 00:33:37.987][private$loadEntries] Creating entries from ids [1]: "15442".
biodb.DEBUG[2025-09-09 00:33:37.990][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-09-09 00:33:37.997][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15442".
biodb.TRACE[2025-09-09 00:33:38.217][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-09-09 00:33:38.301][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15442.xml".
biodb.DEBUG[2025-09-09 00:33:38.308][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-09 00:33:38.311][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-09 00:33:38.315][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-09 00:33:38.318][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:38.320][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:38.322][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:38.342][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:38.344][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:38.346][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:38.349][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:38.354][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:38.357][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:38.359][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:38.362][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:38.364][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:38.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:38.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:38.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:38.370][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-09 00:33:38.372][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-09 00:33:38.374][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:38.375][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:38.378][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-09 00:33:38.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-09 00:33:38.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:38.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:38.385][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-09 00:33:38.387][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-09 00:33:38.389][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:38.391][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:38.393][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-09 00:33:38.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-09 00:33:38.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:38.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:38.407][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-09 00:33:38.410][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-09 00:33:38.412][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:38.414][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:38.416][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-09 00:33:38.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-09 00:33:38.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:38.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:38.430][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-09 00:33:38.432][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-09 00:33:38.434][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:38.436][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:38.439][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-09 00:33:38.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-09 00:33:38.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:38.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:38.448][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-09 00:33:38.451][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-09 00:33:38.453][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:38.455][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:38.458][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-09 00:33:38.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-09 00:33:38.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:38.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:38.468][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-09 00:33:38.470][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:38.473][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:38.476][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:38.478][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-09 00:33:38.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:38.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:38.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:38.487][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:38.489][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:38.491][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:38.500][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:38.503][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:38.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:38.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:38.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:38.514][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-09 00:33:38.517][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-09 00:33:38.520][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:38.522][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:38.525][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-09 00:33:38.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-09 00:33:38.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:38.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:38.534][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-09 00:33:38.536][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-09 00:33:38.538][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:38.540][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:38.543][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-09 00:33:38.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-09 00:33:38.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:38.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:38.553][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-09 00:33:38.556][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-09 00:33:38.558][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:38.560][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:38.562][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-09 00:33:38.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-09 00:33:38.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:38.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:38.570][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:38.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:38.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:38.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:38.575][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:38.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:38.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:38.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:38.580][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:38.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:38.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:38.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:38.586][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:38.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:38.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:38.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:38.592][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:38.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:38.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:38.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:38.599][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:38.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:38.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:38.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:38.615][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:38.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:38.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:38.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:38.627][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:38.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:38.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:38.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:38.636][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:38.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:38.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:38.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:38.645][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:38.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:38.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:38.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:38.656][self$createEntryFromContent] Accession numbers: 15442.
biodb.TRACE[2025-09-09 00:33:38.659][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:38.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:38.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:38.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:38.668][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:38.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:38.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:38.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:38.677][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:38.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:38.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:38.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:38.688][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:38.691][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:38.694][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:38.706][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:38.708][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:38.710][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:38.712][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:38.715][private$loadEntries] Creating entries from ids [1]: "57310".
biodb.DEBUG[2025-09-09 00:33:38.717][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-09-09 00:33:38.721][cch$loadFileContent] Trying to load 1 files from cache: [1]: "57310".
biodb.TRACE[2025-09-09 00:33:38.737][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-09-09 00:33:38.744][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/57310.xml".
biodb.DEBUG[2025-09-09 00:33:38.746][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-09 00:33:38.749][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-09 00:33:38.752][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-09 00:33:38.755][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:38.758][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:38.760][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:38.771][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:38.773][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:38.775][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:38.777][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:38.782][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:38.785][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:38.787][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:38.789][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:38.792][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:38.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:38.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:38.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:38.806][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-09 00:33:38.809][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-09 00:33:38.811][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:38.814][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:38.817][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-09 00:33:38.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-09 00:33:38.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:38.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:38.829][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-09 00:33:38.832][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-09 00:33:38.834][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:38.836][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:38.839][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-09 00:33:38.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-09 00:33:38.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:38.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:38.850][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-09 00:33:38.853][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-09 00:33:38.855][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:38.857][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:38.860][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-09 00:33:38.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-09 00:33:38.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:38.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:38.869][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-09 00:33:38.872][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-09 00:33:38.874][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:38.876][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:38.879][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-09 00:33:38.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-09 00:33:38.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:38.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:38.890][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-09 00:33:38.892][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-09 00:33:38.895][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:38.897][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:38.900][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-09 00:33:38.903][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:38.905][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:38.907][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:38.914][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-09 00:33:38.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:38.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:38.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:38.926][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:38.928][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:38.930][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:38.933][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:38.935][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:38.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:38.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:38.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:38.945][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-09 00:33:38.948][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-09 00:33:38.950][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:38.952][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:38.955][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-09 00:33:38.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-09 00:33:38.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:38.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:38.964][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-09 00:33:38.974][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-09 00:33:38.977][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:38.979][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:38.981][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-09 00:33:38.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-09 00:33:38.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:38.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:38.991][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-09 00:33:39.001][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-09 00:33:39.003][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:39.005][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:39.007][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-09 00:33:39.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-09 00:33:39.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:39.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:39.015][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:39.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:39.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:39.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:39.025][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:39.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:39.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:39.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:39.034][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:39.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:39.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:39.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:39.042][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:39.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:39.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:39.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:39.052][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:39.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:39.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:39.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:39.062][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:39.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:39.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:39.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:39.073][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:39.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:39.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:39.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:39.083][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:39.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:39.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:39.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:39.095][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:39.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:39.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:39.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:39.107][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:39.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:39.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:39.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:39.115][self$createEntryFromContent] Accession numbers: 57310.
biodb.TRACE[2025-09-09 00:33:39.118][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:39.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:39.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:39.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:39.128][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:39.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:39.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:39.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:39.138][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:39.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:39.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:39.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:39.148][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:39.150][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:39.152][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:39.163][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:39.165][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:39.168][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:39.170][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:39.172][private$loadEntries] Creating entries from ids [1]: "66216".
biodb.DEBUG[2025-09-09 00:33:39.184][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-09-09 00:33:39.188][cch$loadFileContent] Trying to load 1 files from cache: [1]: "66216".
biodb.TRACE[2025-09-09 00:33:39.192][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-09-09 00:33:39.195][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66216.xml".
biodb.DEBUG[2025-09-09 00:33:39.198][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-09 00:33:39.200][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-09 00:33:39.203][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-09 00:33:39.207][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:39.209][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:39.211][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:39.235][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:39.238][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:39.240][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:39.242][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:39.248][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:39.250][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:39.253][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:39.255][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:39.258][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:39.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:39.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:39.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:39.275][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-09 00:33:39.277][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-09 00:33:39.279][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:39.281][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:39.284][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-09 00:33:39.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-09 00:33:39.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:39.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:39.297][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-09 00:33:39.304][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-09 00:33:39.306][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:39.308][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:39.311][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-09 00:33:39.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-09 00:33:39.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:39.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:39.320][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-09 00:33:39.323][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-09 00:33:39.325][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:39.327][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:39.330][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-09 00:33:39.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-09 00:33:39.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:39.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:39.339][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-09 00:33:39.340][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-09 00:33:39.342][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:39.343][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:39.346][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-09 00:33:39.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-09 00:33:39.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:39.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:39.355][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-09 00:33:39.357][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-09 00:33:39.359][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:39.362][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:39.364][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-09 00:33:39.366][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:39.369][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:39.371][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:39.374][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-09 00:33:39.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:39.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:39.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:39.395][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:39.397][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:39.400][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:39.402][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:39.405][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:39.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:39.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:39.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:39.416][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-09 00:33:39.418][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-09 00:33:39.421][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:39.423][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:39.427][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-09 00:33:39.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-09 00:33:39.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:39.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:39.439][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-09 00:33:39.441][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-09 00:33:39.444][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:39.446][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:39.450][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-09 00:33:39.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-09 00:33:39.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:39.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:39.462][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-09 00:33:39.465][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-09 00:33:39.468][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:39.470][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:39.473][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-09 00:33:39.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-09 00:33:39.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:39.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:39.483][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:39.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:39.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:39.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:39.493][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:39.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:39.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:39.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:39.503][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:39.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:39.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:39.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:39.519][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:39.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:39.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:39.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:39.537][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:39.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:39.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:39.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:39.547][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:39.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:39.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:39.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:39.556][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:39.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:39.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:39.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:39.566][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:39.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:39.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:39.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:39.576][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:39.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:39.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:39.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:39.586][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:39.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:39.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:39.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:39.595][self$createEntryFromContent] Accession numbers: 66216.
biodb.TRACE[2025-09-09 00:33:39.598][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:39.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:39.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:39.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:39.606][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:39.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:39.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:39.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:39.615][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:39.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:39.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:39.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:39.624][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:39.626][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:39.628][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:39.640][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:39.642][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:39.644][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:39.646][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:39.648][private$loadEntries] Creating entries from ids [1]: "70860".
biodb.DEBUG[2025-09-09 00:33:39.650][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-09-09 00:33:39.654][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70860".
biodb.TRACE[2025-09-09 00:33:39.672][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-09-09 00:33:39.676][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70860.xml".
biodb.DEBUG[2025-09-09 00:33:39.679][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-09 00:33:39.681][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-09 00:33:39.684][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-09 00:33:39.687][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:39.689][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:39.691][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:39.719][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:39.721][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:39.723][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:39.725][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:39.731][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:39.733][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:39.736][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:39.738][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:39.741][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:39.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:39.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:39.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:39.751][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-09 00:33:39.753][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-09 00:33:39.755][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:39.757][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:39.760][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-09 00:33:39.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-09 00:33:39.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:39.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:39.771][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-09 00:33:39.774][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-09 00:33:39.776][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:39.779][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:39.782][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-09 00:33:39.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-09 00:33:39.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:39.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:39.798][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-09 00:33:39.801][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-09 00:33:39.810][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:39.812][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:39.815][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-09 00:33:39.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-09 00:33:39.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:39.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:39.825][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-09 00:33:39.827][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-09 00:33:39.829][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:39.831][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:39.834][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-09 00:33:39.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-09 00:33:39.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:39.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:39.843][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-09 00:33:39.845][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-09 00:33:39.847][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:39.849][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:39.852][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-09 00:33:39.854][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:39.856][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:39.859][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:39.861][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-09 00:33:39.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:39.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:39.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:39.870][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:39.873][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:39.875][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:39.876][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:39.879][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:39.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:39.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:39.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:39.889][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-09 00:33:39.892][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-09 00:33:39.894][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:39.896][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:39.899][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-09 00:33:39.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-09 00:33:39.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:39.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:39.909][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-09 00:33:39.912][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-09 00:33:39.914][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:39.928][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:39.931][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-09 00:33:39.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-09 00:33:39.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:39.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:39.940][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-09 00:33:39.943][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-09 00:33:39.945][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:39.947][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:39.950][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-09 00:33:39.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-09 00:33:39.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:39.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:39.959][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:39.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:39.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:39.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:39.968][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:39.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:39.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:39.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:39.978][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:39.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:39.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:39.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:39.987][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:39.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:39.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:39.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:39.996][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:39.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:40.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:40.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:40.006][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:40.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:40.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:40.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:40.016][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:40.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:40.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:40.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:40.025][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:40.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:40.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:40.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:40.045][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:40.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:40.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:40.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:40.062][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:40.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:40.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:40.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:40.071][self$createEntryFromContent] Accession numbers: 70860.
biodb.TRACE[2025-09-09 00:33:40.074][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:40.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:40.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:40.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:40.082][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:40.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:40.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:40.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:40.090][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:40.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:40.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:40.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:40.100][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:40.102][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:40.104][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:40.114][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:40.117][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:40.119][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:40.121][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:40.124][private$loadEntries] Creating entries from ids [1]: "70861".
biodb.DEBUG[2025-09-09 00:33:40.127][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-09-09 00:33:40.131][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70861".
biodb.TRACE[2025-09-09 00:33:40.134][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-09-09 00:33:40.138][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70861.xml".
biodb.DEBUG[2025-09-09 00:33:40.140][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-09 00:33:40.144][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-09 00:33:40.147][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-09 00:33:40.151][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:40.153][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:40.156][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:40.167][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:40.170][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:40.172][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:40.174][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:40.179][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:40.181][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:40.184][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:40.186][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:40.188][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:40.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:40.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:40.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:40.210][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-09 00:33:40.212][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-09 00:33:40.215][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:40.218][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:40.221][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-09 00:33:40.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-09 00:33:40.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:40.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:40.231][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-09 00:33:40.233][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-09 00:33:40.235][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:40.238][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:40.241][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-09 00:33:40.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-09 00:33:40.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:40.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:40.251][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-09 00:33:40.254][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-09 00:33:40.256][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:40.260][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:40.264][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-09 00:33:40.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-09 00:33:40.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:40.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:40.275][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-09 00:33:40.277][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-09 00:33:40.280][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:40.282][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:40.285][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-09 00:33:40.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-09 00:33:40.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:40.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:40.296][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-09 00:33:40.298][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-09 00:33:40.300][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:40.302][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:40.305][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-09 00:33:40.308][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:40.310][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:40.324][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:40.327][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-09 00:33:40.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:40.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:40.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:40.337][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:40.340][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:40.342][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:40.344][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:40.347][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:40.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:40.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:40.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:40.356][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-09 00:33:40.359][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-09 00:33:40.361][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:40.363][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:40.366][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-09 00:33:40.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-09 00:33:40.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:40.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:40.375][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-09 00:33:40.377][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-09 00:33:40.378][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:40.380][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:40.381][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-09 00:33:40.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-09 00:33:40.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:40.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:40.390][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-09 00:33:40.393][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-09 00:33:40.395][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:40.397][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:40.400][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-09 00:33:40.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-09 00:33:40.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:40.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:40.409][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:40.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:40.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:40.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:40.419][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:40.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:40.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:40.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:40.428][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:40.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:40.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:40.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:40.437][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:40.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:40.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:40.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:40.446][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:40.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:40.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:40.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:40.455][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:40.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:40.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:40.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:40.473][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:40.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:40.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:40.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:40.482][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:40.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:40.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:40.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:40.491][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:40.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:40.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:40.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:40.500][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:40.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:40.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:40.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:40.509][self$createEntryFromContent] Accession numbers: 70861.
biodb.TRACE[2025-09-09 00:33:40.511][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:40.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:40.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:40.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:40.521][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:40.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:40.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:40.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:40.531][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:40.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:40.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:40.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:40.541][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:40.543][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:40.545][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:40.564][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:40.566][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:40.568][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:40.570][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:40.573][private$loadEntries] Creating entries from ids [1]: "78662".
biodb.DEBUG[2025-09-09 00:33:40.576][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-09-09 00:33:40.580][cch$loadFileContent] Trying to load 1 files from cache: [1]: "78662".
biodb.TRACE[2025-09-09 00:33:40.589][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-09-09 00:33:40.605][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/78662.xml".
biodb.DEBUG[2025-09-09 00:33:40.609][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-09 00:33:40.612][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-09 00:33:40.615][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-09 00:33:40.618][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:40.621][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:40.623][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:40.634][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:40.636][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:40.638][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:40.640][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:40.645][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:40.647][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:40.650][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:40.652][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:40.654][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:40.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:40.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:40.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:40.664][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-09 00:33:40.666][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-09 00:33:40.668][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:40.670][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:40.673][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-09 00:33:40.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-09 00:33:40.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:40.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:40.683][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-09 00:33:40.685][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-09 00:33:40.687][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:40.689][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:40.691][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-09 00:33:40.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-09 00:33:40.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:40.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:40.701][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-09 00:33:40.703][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-09 00:33:40.706][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:40.708][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:40.711][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-09 00:33:40.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-09 00:33:40.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:40.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:40.721][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-09 00:33:40.723][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-09 00:33:40.726][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:40.728][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:40.740][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-09 00:33:40.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-09 00:33:40.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:40.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:40.749][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-09 00:33:40.752][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-09 00:33:40.754][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:40.756][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:40.759][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-09 00:33:40.761][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:40.763][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:40.765][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:40.767][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-09 00:33:40.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:40.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:40.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:40.777][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:40.779][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:40.782][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:40.784][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:40.787][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:40.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:40.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:40.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:40.796][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-09 00:33:40.798][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-09 00:33:40.800][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:40.802][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:40.805][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-09 00:33:40.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-09 00:33:40.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:40.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:40.823][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-09 00:33:40.825][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-09 00:33:40.828][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:40.830][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:40.833][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-09 00:33:40.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-09 00:33:40.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:40.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:40.841][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-09 00:33:40.849][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-09 00:33:40.852][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:40.854][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:40.857][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-09 00:33:40.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-09 00:33:40.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:40.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:40.867][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:40.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:40.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:40.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:40.875][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:40.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:40.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:40.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:40.885][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:40.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:40.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:40.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:40.894][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:40.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:40.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:40.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:40.904][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:40.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:40.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:40.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:40.912][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:40.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:40.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:40.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:40.921][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:40.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:40.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:40.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:40.931][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:40.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:40.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:40.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:40.939][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:40.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:40.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:40.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:40.947][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:40.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:40.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:40.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:40.955][self$createEntryFromContent] Accession numbers: 78662.
biodb.TRACE[2025-09-09 00:33:40.957][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:40.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:40.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:40.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:40.966][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:40.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:40.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:40.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:40.974][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:40.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:40.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:40.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:40.980][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:40.985][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:40.987][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:40.998][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:41.000][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:41.002][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:41.004][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:41.006][private$loadEntries] Creating entries from ids [1]: "85084".
biodb.DEBUG[2025-09-09 00:33:41.009][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-09-09 00:33:41.013][cch$loadFileContent] Trying to load 1 files from cache: [1]: "85084".
biodb.TRACE[2025-09-09 00:33:41.016][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-09-09 00:33:41.023][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85084.xml".
biodb.DEBUG[2025-09-09 00:33:41.025][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-09 00:33:41.028][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-09 00:33:41.031][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-09 00:33:41.035][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:41.038][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:41.040][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:41.060][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:41.062][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:41.064][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:41.067][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:41.071][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:41.073][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:41.076][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:41.078][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:41.081][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:41.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:41.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:41.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:41.091][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-09 00:33:41.093][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-09 00:33:41.096][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:41.099][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:41.102][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-09 00:33:41.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-09 00:33:41.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:41.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:41.115][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-09 00:33:41.118][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-09 00:33:41.120][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:41.122][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:41.125][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-09 00:33:41.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-09 00:33:41.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:41.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:41.134][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-09 00:33:41.137][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-09 00:33:41.139][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:41.141][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:41.144][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-09 00:33:41.146][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-09 00:33:41.148][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:41.150][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:41.153][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-09 00:33:41.155][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-09 00:33:41.158][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:41.160][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:41.162][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-09 00:33:41.165][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:41.167][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:41.169][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:41.172][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-09 00:33:41.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:41.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:41.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:41.182][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:41.185][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:41.188][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:41.190][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:41.192][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:41.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:41.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:41.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:41.202][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-09 00:33:41.204][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-09 00:33:41.206][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:41.208][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:41.211][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-09 00:33:41.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-09 00:33:41.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:41.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:41.221][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-09 00:33:41.223][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-09 00:33:41.224][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:41.226][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:41.228][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-09 00:33:41.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-09 00:33:41.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:41.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:41.242][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-09 00:33:41.244][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-09 00:33:41.247][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:41.249][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:41.251][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:41.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:41.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:41.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:41.261][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:41.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:41.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:41.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:41.270][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:41.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:41.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:41.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:41.279][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:41.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:41.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:41.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:41.296][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:41.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:41.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:41.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:41.306][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:41.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:41.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:41.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:41.316][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:41.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:41.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:41.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:41.326][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:41.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:41.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:41.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:41.335][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:41.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:41.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:41.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:41.347][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:41.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:41.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:41.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:41.356][self$createEntryFromContent] Accession numbers: 85084.
biodb.TRACE[2025-09-09 00:33:41.359][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:41.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:41.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:41.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:41.368][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:41.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:41.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:41.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:41.378][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:41.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:41.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:41.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:41.386][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:41.389][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:41.391][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:41.402][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:41.404][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:41.406][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:41.408][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:41.410][private$loadEntries] Creating entries from ids [1]: "85086".
biodb.DEBUG[2025-09-09 00:33:41.412][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-09-09 00:33:41.416][cch$loadFileContent] Trying to load 1 files from cache: [1]: "85086".
biodb.TRACE[2025-09-09 00:33:41.419][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-09-09 00:33:41.422][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85086.xml".
biodb.DEBUG[2025-09-09 00:33:41.425][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-09 00:33:41.427][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-09 00:33:41.430][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-09 00:33:41.434][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:41.436][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:41.438][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:41.448][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:41.451][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:41.452][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:41.454][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:41.459][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:41.461][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:41.463][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:41.465][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:41.468][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:41.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:41.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:41.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:41.477][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-09 00:33:41.479][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-09 00:33:41.481][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:41.484][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:41.487][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-09 00:33:41.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-09 00:33:41.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:41.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:41.500][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-09 00:33:41.503][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-09 00:33:41.506][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:41.508][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:41.511][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-09 00:33:41.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-09 00:33:41.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:41.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:41.519][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-09 00:33:41.525][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-09 00:33:41.527][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:41.530][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:41.532][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-09 00:33:41.535][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-09 00:33:41.538][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:41.541][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:41.544][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-09 00:33:41.548][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-09 00:33:41.550][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:41.552][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:41.555][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-09 00:33:41.557][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:41.560][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:41.562][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:41.564][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-09 00:33:41.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:41.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:41.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:41.574][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:41.577][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:41.579][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:41.581][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:41.584][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:41.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:41.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:41.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:41.594][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-09 00:33:41.597][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-09 00:33:41.599][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:41.607][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:41.611][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-09 00:33:41.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-09 00:33:41.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:41.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:41.621][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-09 00:33:41.624][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-09 00:33:41.626][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:41.629][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:41.632][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-09 00:33:41.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-09 00:33:41.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:41.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:41.641][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-09 00:33:41.644][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-09 00:33:41.646][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:41.649][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:41.652][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:41.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:41.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:41.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:41.661][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:41.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:41.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:41.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:41.671][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:41.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:41.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:41.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:41.680][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:41.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:41.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:41.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:41.690][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:41.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:41.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:41.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:41.700][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:41.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:41.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:41.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:41.709][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:41.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:41.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:41.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:41.718][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:41.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:41.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:41.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:41.728][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:41.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:41.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:41.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:41.738][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:41.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:41.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:41.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:41.757][self$createEntryFromContent] Accession numbers: 85086.
biodb.TRACE[2025-09-09 00:33:41.759][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:41.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:41.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:41.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:41.769][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:41.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:41.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:41.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:41.786][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:41.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:41.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:41.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:41.793][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:41.794][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:41.796][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:41.809][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:41.811][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:41.814][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:41.816][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[2025-09-09 00:33:41.818][private$loadEntries] Creating entries from ids [1]: "88123".
biodb.DEBUG[2025-09-09 00:33:41.821][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-09-09 00:33:41.825][cch$loadFileContent] Trying to load 1 files from cache: [1]: "88123".
biodb.TRACE[2025-09-09 00:33:41.832][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-09-09 00:33:41.842][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/88123.xml".
biodb.DEBUG[2025-09-09 00:33:41.844][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-09 00:33:41.847][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-09 00:33:41.850][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-09 00:33:41.855][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:41.857][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:41.859][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:41.875][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:41.877][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:41.879][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:41.882][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:41.887][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:41.889][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:41.890][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:41.892][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:41.895][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:41.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:41.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:41.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:41.903][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-09 00:33:41.905][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-09 00:33:41.907][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:41.909][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:41.912][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-09 00:33:41.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-09 00:33:41.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:41.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:41.921][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-09 00:33:41.924][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-09 00:33:41.926][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:41.929][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:41.931][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-09 00:33:41.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-09 00:33:41.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:41.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:41.941][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-09 00:33:41.943][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-09 00:33:41.946][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:41.948][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:41.951][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-09 00:33:41.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-09 00:33:41.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:41.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:41.961][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-09 00:33:41.964][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-09 00:33:41.966][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:41.968][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:41.971][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-09 00:33:41.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-09 00:33:41.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:41.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:41.981][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-09 00:33:41.984][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-09 00:33:41.986][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:41.988][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:41.991][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-09 00:33:41.994][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:41.996][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:41.998][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:42.001][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-09 00:33:42.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:42.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:42.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:42.010][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:42.012][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:42.015][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:42.024][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:42.036][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:42.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:42.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:42.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:42.047][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-09 00:33:42.049][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-09 00:33:42.051][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:42.053][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:42.056][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-09 00:33:42.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-09 00:33:42.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:42.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:42.065][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-09 00:33:42.068][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-09 00:33:42.070][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:42.072][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:42.075][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-09 00:33:42.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-09 00:33:42.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:42.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:42.085][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-09 00:33:42.087][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-09 00:33:42.089][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:42.091][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:42.094][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-09 00:33:42.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-09 00:33:42.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:42.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:42.104][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:42.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:42.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:42.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:42.113][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:42.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:42.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:42.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:42.122][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:42.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:42.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:42.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:42.131][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:42.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:42.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:42.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:42.149][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:42.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:42.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:42.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:42.159][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:42.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:42.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:42.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:42.168][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:42.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:42.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:42.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:42.178][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:42.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:42.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:42.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:42.189][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:42.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:42.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:42.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:42.199][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:42.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:42.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:42.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:42.209][self$createEntryFromContent] Accession numbers: 88123.
biodb.TRACE[2025-09-09 00:33:42.211][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:42.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:42.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:42.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:42.220][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:42.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:42.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:42.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:42.230][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:42.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:42.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:42.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:42.239][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:42.241][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:42.243][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:42.254][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:42.256][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:42.258][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:42.260][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:42.263][private$loadEntries] Creating entries from ids [1]: "134117".
biodb.DEBUG[2025-09-09 00:33:42.265][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-09-09 00:33:42.284][cch$loadFileContent] Trying to load 1 files from cache: [1]: "134117".
biodb.TRACE[2025-09-09 00:33:42.287][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-09-09 00:33:42.291][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/134117.xml".
biodb.DEBUG[2025-09-09 00:33:42.294][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-09 00:33:42.297][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-09 00:33:42.299][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-09 00:33:42.303][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:42.305][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:42.307][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:42.337][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:42.340][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:42.343][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:42.345][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:42.350][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:42.353][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:42.355][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:42.357][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:42.359][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:42.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:42.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:42.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:42.370][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-09 00:33:42.372][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-09 00:33:42.374][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:42.377][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:42.379][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-09 00:33:42.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-09 00:33:42.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:42.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:42.388][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-09 00:33:42.390][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-09 00:33:42.396][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:42.403][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:42.406][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-09 00:33:42.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-09 00:33:42.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:42.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:42.417][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-09 00:33:42.420][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-09 00:33:42.422][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:42.425][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:42.428][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-09 00:33:42.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-09 00:33:42.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:42.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:42.438][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-09 00:33:42.440][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-09 00:33:42.443][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:42.445][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:42.449][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-09 00:33:42.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-09 00:33:42.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:42.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:42.460][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-09 00:33:42.463][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-09 00:33:42.466][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:42.468][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:42.471][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-09 00:33:42.474][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:42.476][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:42.479][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:42.482][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-09 00:33:42.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:42.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:42.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:42.492][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:42.495][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:42.497][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:42.499][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:42.502][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:42.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:42.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:42.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:42.514][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-09 00:33:42.517][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-09 00:33:42.528][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:42.530][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:42.534][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-09 00:33:42.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-09 00:33:42.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:42.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:42.545][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-09 00:33:42.547][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-09 00:33:42.550][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:42.552][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:42.555][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-09 00:33:42.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-09 00:33:42.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:42.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:42.574][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-09 00:33:42.577][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-09 00:33:42.580][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:42.583][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:42.587][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-09 00:33:42.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-09 00:33:42.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:42.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:42.598][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:42.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:42.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:42.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:42.610][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:42.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:42.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:42.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:42.622][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:42.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:42.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:42.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:42.634][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:42.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:42.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:42.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:42.645][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:42.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:42.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:42.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:42.661][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:42.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:42.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:42.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:42.673][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:42.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:42.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:42.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:42.684][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:42.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:42.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:42.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:42.694][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:42.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:42.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:42.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:42.704][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:42.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:42.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:42.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:42.714][self$createEntryFromContent] Accession numbers: 134117.
biodb.TRACE[2025-09-09 00:33:42.718][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:42.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:42.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:42.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:42.729][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:42.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:42.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:42.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:42.739][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:42.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:42.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:42.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:42.748][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:42.750][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:42.752][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:42.764][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:42.767][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:42.769][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:42.772][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:42.775][private$loadEntries] Creating entries from ids [1]: "138307".
biodb.DEBUG[2025-09-09 00:33:42.778][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-09-09 00:33:42.782][cch$loadFileContent] Trying to load 1 files from cache: [1]: "138307".
biodb.TRACE[2025-09-09 00:33:42.786][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-09-09 00:33:42.790][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/138307.xml".
biodb.DEBUG[2025-09-09 00:33:42.793][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-09 00:33:42.796][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-09 00:33:42.799][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-09 00:33:42.802][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:42.814][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:42.817][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:42.867][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:42.870][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:42.872][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:42.874][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:42.878][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:42.881][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:42.883][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:42.893][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:42.896][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:42.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:42.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:42.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:42.906][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-09 00:33:42.909][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-09 00:33:42.911][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:42.913][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:42.916][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-09 00:33:42.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-09 00:33:42.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:42.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:42.932][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-09 00:33:42.934][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-09 00:33:42.937][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:42.939][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:42.942][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-09 00:33:42.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-09 00:33:42.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:42.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:42.952][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-09 00:33:42.955][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-09 00:33:42.957][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:42.959][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:42.962][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-09 00:33:42.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-09 00:33:42.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:42.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:42.971][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-09 00:33:42.974][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-09 00:33:42.976][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:42.978][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:42.981][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-09 00:33:42.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-09 00:33:42.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:42.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:42.990][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-09 00:33:42.993][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-09 00:33:42.995][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:42.996][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:42.999][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-09 00:33:43.001][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:43.003][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:43.005][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:43.008][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-09 00:33:43.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:43.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:43.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:43.016][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:43.017][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:43.019][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:43.020][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:43.023][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:43.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:43.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:43.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:43.032][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-09 00:33:43.034][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-09 00:33:43.036][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:43.039][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:43.042][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-09 00:33:43.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-09 00:33:43.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:43.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:43.051][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-09 00:33:43.054][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-09 00:33:43.063][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:43.066][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:43.069][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-09 00:33:43.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-09 00:33:43.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:43.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:43.078][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-09 00:33:43.081][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-09 00:33:43.083][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:43.086][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:43.089][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-09 00:33:43.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-09 00:33:43.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:43.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:43.098][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:43.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:43.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:43.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:43.107][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:43.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:43.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:43.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:43.118][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:43.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:43.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:43.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:43.128][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:43.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:43.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:43.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:43.146][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:43.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:43.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:43.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:43.155][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:43.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:43.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:43.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:43.165][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:43.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:43.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:43.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:43.181][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:43.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:43.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:43.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:43.190][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:43.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:43.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:43.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:43.200][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:43.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:43.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:43.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:43.209][self$createEntryFromContent] Accession numbers: 138307.
biodb.TRACE[2025-09-09 00:33:43.212][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:43.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:43.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:43.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:43.221][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:43.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:43.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:43.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:43.230][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:43.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:43.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:43.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:43.241][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:43.243][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:43.245][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:43.257][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:43.259][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:43.261][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:43.263][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:43.265][private$loadEntries] Creating entries from ids [1]: "176803".
biodb.DEBUG[2025-09-09 00:33:43.268][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-09-09 00:33:43.271][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176803".
biodb.TRACE[2025-09-09 00:33:43.294][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-09-09 00:33:43.298][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176803.xml".
biodb.DEBUG[2025-09-09 00:33:43.300][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-09 00:33:43.303][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-09 00:33:43.306][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-09 00:33:43.309][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:43.318][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:43.320][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:43.370][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:43.372][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:43.374][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:43.376][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:43.381][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:43.384][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:43.386][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:43.388][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:43.391][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:43.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:43.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:43.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:43.400][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-09 00:33:43.403][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-09 00:33:43.405][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:43.407][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:43.410][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-09 00:33:43.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-09 00:33:43.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:43.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:43.425][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-09 00:33:43.428][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-09 00:33:43.431][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:43.433][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:43.435][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-09 00:33:43.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-09 00:33:43.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:43.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:43.454][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-09 00:33:43.456][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-09 00:33:43.459][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:43.461][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:43.464][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-09 00:33:43.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-09 00:33:43.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:43.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:43.474][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-09 00:33:43.476][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-09 00:33:43.479][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:43.481][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:43.484][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-09 00:33:43.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-09 00:33:43.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:43.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:43.494][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-09 00:33:43.496][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-09 00:33:43.498][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:43.500][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:43.503][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-09 00:33:43.506][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:43.508][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:43.510][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:43.513][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-09 00:33:43.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:43.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:43.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:43.523][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:43.526][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:43.528][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:43.530][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:43.533][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:43.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:43.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:43.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:43.543][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-09 00:33:43.545][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-09 00:33:43.565][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:43.567][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:43.571][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-09 00:33:43.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-09 00:33:43.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:43.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:43.581][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-09 00:33:43.584][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-09 00:33:43.586][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:43.588][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:43.591][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-09 00:33:43.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-09 00:33:43.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:43.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:43.602][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-09 00:33:43.604][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-09 00:33:43.606][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:43.608][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:43.610][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-09 00:33:43.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-09 00:33:43.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:43.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:43.620][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:43.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:43.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:43.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:43.629][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:43.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:43.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:43.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:43.638][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:43.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:43.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:43.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:43.647][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:43.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:43.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:43.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:43.657][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:43.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:43.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:43.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:43.665][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:43.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:43.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:43.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:43.677][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:43.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:43.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:43.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:43.687][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:43.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:43.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:43.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:43.696][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:43.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:43.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:43.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:43.714][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:43.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:43.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:43.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:43.724][self$createEntryFromContent] Accession numbers: 176803.
biodb.TRACE[2025-09-09 00:33:43.726][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:43.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:43.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:43.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:43.735][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:43.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:43.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:43.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:43.745][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:43.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:43.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:43.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:43.753][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:43.755][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:43.757][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:43.768][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:43.770][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:43.772][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:43.774][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:43.777][private$loadEntries] Creating entries from ids [1]: "176962".
biodb.DEBUG[2025-09-09 00:33:43.779][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-09-09 00:33:43.783][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176962".
biodb.TRACE[2025-09-09 00:33:43.786][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-09-09 00:33:43.823][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176962.xml".
biodb.DEBUG[2025-09-09 00:33:43.826][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-09 00:33:43.830][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-09 00:33:43.833][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-09 00:33:43.836][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:43.838][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:43.840][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:43.859][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:43.861][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:43.863][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:43.866][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:43.871][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:43.874][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:43.877][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:43.879][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:43.882][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:43.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:43.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:43.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:43.892][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-09 00:33:43.894][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-09 00:33:43.897][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:43.899][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:43.902][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-09 00:33:43.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-09 00:33:43.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:43.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:43.914][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-09 00:33:43.918][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-09 00:33:43.921][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:43.923][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:43.926][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-09 00:33:43.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-09 00:33:43.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:43.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:43.936][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-09 00:33:43.939][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-09 00:33:43.941][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:43.943][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:43.946][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-09 00:33:43.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-09 00:33:43.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:43.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:43.955][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-09 00:33:43.958][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-09 00:33:43.960][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:43.961][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:43.963][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-09 00:33:43.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-09 00:33:43.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:43.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:43.971][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-09 00:33:43.974][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-09 00:33:43.975][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:43.977][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:43.987][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-09 00:33:43.989][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:43.992][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:43.994][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:43.997][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-09 00:33:44.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:44.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:44.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:44.006][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:44.009][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:44.011][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:44.013][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:44.016][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:44.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:44.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:44.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:44.024][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-09 00:33:44.027][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-09 00:33:44.029][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:44.031][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:44.034][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-09 00:33:44.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-09 00:33:44.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:44.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:44.044][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-09 00:33:44.046][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-09 00:33:44.048][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:44.055][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:44.058][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-09 00:33:44.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-09 00:33:44.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:44.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:44.068][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-09 00:33:44.070][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-09 00:33:44.073][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:44.075][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:44.078][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-09 00:33:44.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-09 00:33:44.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:44.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:44.088][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:44.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:44.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:44.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:44.097][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:44.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:44.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:44.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:44.107][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:44.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:44.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:44.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:44.116][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:44.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:44.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:44.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:44.125][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:44.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:44.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:44.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:44.135][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:44.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:44.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:44.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:44.145][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:44.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:44.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:44.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:44.157][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:44.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:44.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:44.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:44.165][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:44.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:44.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:44.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:44.171][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:44.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:44.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:44.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:44.176][self$createEntryFromContent] Accession numbers: 176962.
biodb.TRACE[2025-09-09 00:33:44.178][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:44.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:44.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:44.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:44.186][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:44.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:44.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:44.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:44.195][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:44.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:44.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:44.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:44.204][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:44.214][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:44.216][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:44.228][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:44.231][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:44.233][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:44.235][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:44.238][private$loadEntries] Creating entries from ids [1]: "198655".
biodb.DEBUG[2025-09-09 00:33:44.240][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-09-09 00:33:44.244][cch$loadFileContent] Trying to load 1 files from cache: [1]: "198655".
biodb.TRACE[2025-09-09 00:33:44.247][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-09-09 00:33:44.250][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/198655.xml".
biodb.DEBUG[2025-09-09 00:33:44.252][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-09 00:33:44.255][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-09 00:33:44.258][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-09 00:33:44.261][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:44.264][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:44.265][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:44.275][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:44.283][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:44.286][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:44.288][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:44.293][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:44.295][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:44.297][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:44.299][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:44.301][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:44.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:44.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:44.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:44.310][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-09 00:33:44.313][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-09 00:33:44.315][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:44.317][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:44.320][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-09 00:33:44.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-09 00:33:44.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:44.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:44.330][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-09 00:33:44.333][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-09 00:33:44.335][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:44.337][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:44.339][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-09 00:33:44.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-09 00:33:44.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:44.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:44.348][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-09 00:33:44.350][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-09 00:33:44.351][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:44.352][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:44.355][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-09 00:33:44.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-09 00:33:44.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:44.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:44.369][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-09 00:33:44.372][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-09 00:33:44.374][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:44.376][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:44.379][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-09 00:33:44.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-09 00:33:44.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:44.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:44.388][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-09 00:33:44.391][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-09 00:33:44.393][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:44.396][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:44.399][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-09 00:33:44.402][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:44.404][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:44.407][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:44.410][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-09 00:33:44.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:44.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:44.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:44.421][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:44.424][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:44.427][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:44.429][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:44.432][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:44.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:44.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:44.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:44.441][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-09 00:33:44.444][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-09 00:33:44.446][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:44.448][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:44.460][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-09 00:33:44.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-09 00:33:44.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:44.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:44.471][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-09 00:33:44.473][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-09 00:33:44.476][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:44.478][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:44.481][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-09 00:33:44.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-09 00:33:44.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:44.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:44.489][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-09 00:33:44.491][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-09 00:33:44.492][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:44.494][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:44.497][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-09 00:33:44.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-09 00:33:44.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:44.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:44.513][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:44.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:44.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:44.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:44.523][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:44.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:44.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:44.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:44.532][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:44.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:44.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:44.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:44.540][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:44.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:44.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:44.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:44.551][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:44.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:44.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:44.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:44.559][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:44.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:44.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:44.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:44.565][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:44.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:44.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:44.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:44.574][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:44.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:44.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:44.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:44.583][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:44.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:44.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:44.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:44.603][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:44.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:44.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:44.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:44.612][self$createEntryFromContent] Accession numbers: 198655.
biodb.TRACE[2025-09-09 00:33:44.615][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:44.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:44.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:44.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:44.624][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:44.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:44.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:44.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:44.634][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:44.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:44.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:44.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:44.643][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:44.645][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:44.647][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:44.658][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:44.660][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:44.662][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:44.664][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:44.667][private$loadEntries] Creating entries from ids [1]: "215045".
biodb.DEBUG[2025-09-09 00:33:44.669][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-09-09 00:33:44.674][cch$loadFileContent] Trying to load 1 files from cache: [1]: "215045".
biodb.TRACE[2025-09-09 00:33:44.677][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-09-09 00:33:44.680][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/215045.xml".
biodb.DEBUG[2025-09-09 00:33:44.682][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-09 00:33:44.685][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-09 00:33:44.688][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-09 00:33:44.692][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:44.702][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:44.704][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:44.716][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:44.718][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:44.720][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:44.723][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:44.728][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:44.730][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:44.733][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:44.735][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:44.738][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:44.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:44.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:44.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:44.747][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-09 00:33:44.749][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-09 00:33:44.752][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:44.754][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:44.757][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-09 00:33:44.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-09 00:33:44.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:44.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:44.766][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-09 00:33:44.773][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-09 00:33:44.775][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:44.777][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:44.780][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-09 00:33:44.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-09 00:33:44.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:44.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:44.790][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-09 00:33:44.792][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-09 00:33:44.795][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:44.797][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:44.799][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-09 00:33:44.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-09 00:33:44.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:44.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:44.809][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-09 00:33:44.811][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-09 00:33:44.814][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:44.816][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:44.819][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-09 00:33:44.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-09 00:33:44.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:44.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:44.826][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-09 00:33:44.828][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-09 00:33:44.829][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:44.831][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:44.834][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-09 00:33:44.837][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:44.839][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:44.840][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:44.843][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-09 00:33:44.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:44.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:44.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:44.853][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:44.856][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:44.860][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:44.862][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:44.865][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:44.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:44.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:44.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:44.875][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-09 00:33:44.878][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-09 00:33:44.881][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:44.883][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:44.887][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-09 00:33:44.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-09 00:33:44.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:44.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:44.897][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-09 00:33:44.900][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-09 00:33:44.902][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:44.905][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:44.908][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-09 00:33:44.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-09 00:33:44.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:44.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:44.917][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-09 00:33:44.920][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-09 00:33:44.922][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:44.924][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:44.927][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-09 00:33:44.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-09 00:33:44.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:44.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:44.947][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:44.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:44.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:44.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:44.958][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:44.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:44.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:44.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:44.967][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:44.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:44.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:44.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:44.977][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:44.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:44.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:44.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:44.986][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:44.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:44.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:44.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:44.995][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:44.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:45.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:45.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:45.005][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:45.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:45.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:45.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:45.022][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:45.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:45.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:45.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:45.030][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:45.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:45.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:45.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:45.040][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:45.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:45.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:45.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:45.049][self$createEntryFromContent] Accession numbers: 215045.
biodb.TRACE[2025-09-09 00:33:45.051][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:45.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:45.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:45.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:45.060][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:45.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:45.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:45.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:45.070][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:45.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:45.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:45.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:45.117][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".
biodb.DEBUG[2025-09-09 00:33:45.124][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-09-09 00:33:45.128][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-09-09 00:33:45.131][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-09-09 00:33:45.134][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-09-09 00:33:45.140][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:45.142][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:45.144][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:45.154][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:45.157][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:45.159][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:45.161][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:45.164][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:45.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:45.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:45.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:45.174][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:45.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:45.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:45.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:45.192][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:45.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:45.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:45.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:45.202][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:45.204][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:45.206][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:45.218][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:45.220][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:45.222][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:45.224][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[2025-09-09 00:33:45.235][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:45.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:45.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:45.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:45.245][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:45.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:45.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:45.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:45.255][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:45.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:45.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:45.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:45.264][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:45.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:45.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:45.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:45.275][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:45.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:45.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:45.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:45.286][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:45.288][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:45.290][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:45.300][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:45.302][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:45.304][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:45.306][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:45.309][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:45.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:45.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:45.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:45.319][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:45.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:45.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:45.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:45.327][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:45.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:45.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:45.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:45.336][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:45.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:45.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:45.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:45.347][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:45.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:45.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:45.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:45.356][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:45.358][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:45.360][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:45.371][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:45.373][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:45.375][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:45.377][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:45.380][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:45.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:45.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:45.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:45.390][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:45.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:45.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:45.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:45.399][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:45.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:45.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:45.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:45.405][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:45.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:45.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:45.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:45.415][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:45.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:45.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:45.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:45.432][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:45.434][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:45.436][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:45.447][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:45.450][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:45.452][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:45.454][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:45.456][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:45.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:45.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:45.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:45.465][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:45.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:45.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:45.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:45.481][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:45.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:45.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:45.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:45.491][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:45.493][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:45.495][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:45.530][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:45.532][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:45.535][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:45.537][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:45.540][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:45.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:45.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:45.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:45.549][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:45.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:45.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:45.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:45.558][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:45.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:45.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:45.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:45.567][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:45.569][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:45.572][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:45.584][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:45.586][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:45.589][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:45.591][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:45.598][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:45.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:45.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:45.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:45.610][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:45.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:45.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:45.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:45.621][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:45.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:45.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:45.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:45.632][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:45.634][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:45.636][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:45.648][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:45.650][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:45.652][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:45.654][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:45.656][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:45.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:45.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:45.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:45.665][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:45.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:45.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:45.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:45.674][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:45.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:45.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:45.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:45.683][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:45.684][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:45.686][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:45.706][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:45.717][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:45.719][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:45.721][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:45.724][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:45.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:45.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:45.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:45.733][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:45.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:45.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:45.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:45.742][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:45.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:45.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:45.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:45.752][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:45.754][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:45.756][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:45.768][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:45.770][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:45.772][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:45.774][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:45.777][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:45.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:45.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:45.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:45.785][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:45.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:45.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:45.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:45.795][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:45.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:45.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:45.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:45.802][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:45.804][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:45.806][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:45.818][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:45.820][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:45.824][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:45.827][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:45.829][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:45.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:45.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:45.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:45.839][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:45.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:45.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:45.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:45.849][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:45.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:45.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:45.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:45.858][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:45.860][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:45.863][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:45.874][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:45.876][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:45.878][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:45.880][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:45.882][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:45.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:45.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:45.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:45.891][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:45.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:45.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:45.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:45.900][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:45.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:45.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:45.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:45.909][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:45.911][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:45.912][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:45.923][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:45.925][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:45.927][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:45.929][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[2025-09-09 00:33:45.940][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:45.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:45.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:45.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:45.955][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:45.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:45.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:45.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:45.963][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:45.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:45.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:45.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:45.972][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:45.974][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:45.976][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:45.986][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:45.990][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:45.992][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:45.994][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.TRACE[2025-09-09 00:33:45.997][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:45.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:46.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:46.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:46.004][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:46.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:46.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:46.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:46.013][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:46.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:46.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:46.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:46.021][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:46.024][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:46.026][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:46.037][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:46.039][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:46.041][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:46.043][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:46.045][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:46.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:46.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:46.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:46.056][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:46.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:46.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:46.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:46.065][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:46.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:46.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:46.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:46.073][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:46.075][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:46.077][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:46.087][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:46.090][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:46.092][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:46.094][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[2025-09-09 00:33:46.097][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:46.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:46.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:46.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:46.107][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:46.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:46.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:46.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:46.116][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:46.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:46.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:46.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:46.126][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:46.128][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:46.130][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:46.142][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:46.144][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:46.147][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:46.149][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:46.152][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:46.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:46.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:46.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:46.160][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:46.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:46.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:46.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:46.178][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:46.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:46.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:46.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:46.193][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:46.195][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:46.197][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:46.236][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:46.238][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:46.240][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:46.242][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:46.245][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:46.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:46.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:46.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:46.253][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:46.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:46.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:46.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:46.261][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:46.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:46.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:46.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:46.270][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:46.272][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:46.274][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:46.285][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:46.286][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:46.287][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:46.289][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:46.290][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:46.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:46.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:46.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:46.298][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:46.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:46.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:46.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:46.305][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:46.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:46.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:46.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:46.312][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:46.314][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:46.316][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:46.323][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:46.325][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:46.326][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:46.327][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:46.329][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:46.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:46.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:46.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:46.337][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:46.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:46.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:46.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:46.347][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:46.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:46.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:46.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:46.392][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:46.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:46.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:46.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:46.402][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:46.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:46.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:46.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:46.412][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:46.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:46.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:46.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:46.430][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:46.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:46.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:46.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:46.439][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:46.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:46.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:46.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:46.506][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".
biodb.DEBUG[2025-09-09 00:33:46.514][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-09-09 00:33:46.517][cch$loadFileContent] Trying to load 1 files from cache: [1]: "c5171beada848a87ef2ffa10427d9be3".
biodb.TRACE[2025-09-09 00:33:46.520][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-09-09 00:33:46.558][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c5171beada848a87ef2ffa10427d9be3.content".
biodb.DEBUG[2025-09-09 00:33:46.565][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".
biodb.DEBUG[2025-09-09 00:33:46.571][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-09-09 00:33:46.574][cch$loadFileContent] Trying to load 1 files from cache: [1]: "750e63ff76a843f016511fa71c89113e".
biodb.TRACE[2025-09-09 00:33:46.577][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-09-09 00:33:46.581][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/750e63ff76a843f016511fa71c89113e.content".
biodb.DEBUG[2025-09-09 00:33:46.586][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:46.588][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:46.590][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:46.602][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:46.604][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:46.606][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:46.608][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:46.611][private$loadEntries] Creating entries from ids [1]: "4648".
biodb.DEBUG[2025-09-09 00:33:46.613][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-09-09 00:33:46.617][cch$loadFileContent] Trying to load 1 files from cache: [1]: "4648".
biodb.TRACE[2025-09-09 00:33:46.619][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-09-09 00:33:46.623][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4648.xml".
biodb.DEBUG[2025-09-09 00:33:46.625][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-09 00:33:46.628][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-09 00:33:46.630][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-09 00:33:46.633][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:46.635][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:46.637][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:46.648][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:46.650][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:46.652][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:46.654][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:46.659][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:46.661][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:46.663][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:46.665][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:46.676][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:46.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:46.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:46.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:46.685][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-09 00:33:46.688][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-09 00:33:46.690][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:46.692][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:46.694][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-09 00:33:46.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-09 00:33:46.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:46.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:46.704][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-09 00:33:46.706][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-09 00:33:46.708][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:46.711][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:46.714][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-09 00:33:46.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-09 00:33:46.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:46.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:46.724][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-09 00:33:46.726][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-09 00:33:46.728][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:46.730][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:46.732][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-09 00:33:46.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-09 00:33:46.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:46.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:46.741][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-09 00:33:46.743][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-09 00:33:46.745][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:46.746][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:46.748][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-09 00:33:46.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-09 00:33:46.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:46.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:46.759][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-09 00:33:46.761][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-09 00:33:46.764][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:46.765][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:46.767][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-09 00:33:46.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-09 00:33:46.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:46.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:46.776][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-09 00:33:46.779][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:46.781][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:46.783][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:46.786][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-09 00:33:46.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:46.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:46.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:46.795][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:46.797][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:46.799][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:46.801][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:46.804][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:46.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:46.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:46.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:46.820][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-09 00:33:46.823][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-09 00:33:46.825][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:46.827][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:46.830][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-09 00:33:46.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-09 00:33:46.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:46.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:46.839][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-09 00:33:46.842][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-09 00:33:46.850][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:46.852][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:46.855][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-09 00:33:46.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-09 00:33:46.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:46.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:46.863][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-09 00:33:46.866][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-09 00:33:46.868][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:46.870][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:46.873][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-09 00:33:46.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-09 00:33:46.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:46.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:46.884][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:46.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:46.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:46.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:46.897][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:46.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:46.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:46.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:46.916][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:46.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:46.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:46.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:46.926][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:46.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:46.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:46.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:46.936][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:46.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:46.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:46.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:46.947][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:46.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:46.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:46.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:46.960][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:46.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:46.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:46.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:46.970][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:46.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:46.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:46.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:46.980][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:46.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:46.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:46.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:46.996][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:46.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:47.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:47.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:47.006][self$createEntryFromContent] Accession numbers: 4648.
biodb.TRACE[2025-09-09 00:33:47.008][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:47.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:47.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:47.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:47.016][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:47.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:47.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:47.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:47.025][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:47.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:47.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:47.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:47.031][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:47.033][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:47.035][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:47.047][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:47.049][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:47.051][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:47.053][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:47.056][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:47.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:47.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:47.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:47.065][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:47.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:47.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:47.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:47.074][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:47.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:47.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:47.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:47.083][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:47.085][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:47.087][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:47.098][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:47.100][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:47.102][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:47.104][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:47.107][private$loadEntries] Creating entries from ids [1]: "62447".
biodb.DEBUG[2025-09-09 00:33:47.109][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-09-09 00:33:47.113][cch$loadFileContent] Trying to load 1 files from cache: [1]: "62447".
biodb.TRACE[2025-09-09 00:33:47.116][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-09-09 00:33:47.119][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62447.xml".
biodb.DEBUG[2025-09-09 00:33:47.121][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-09 00:33:47.124][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-09 00:33:47.127][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-09 00:33:47.130][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:47.132][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:47.135][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:47.154][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:47.157][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:47.159][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:47.161][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:47.165][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:47.166][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:47.168][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:47.171][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:47.173][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:47.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:47.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:47.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:47.182][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-09 00:33:47.185][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-09 00:33:47.187][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:47.189][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:47.192][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-09 00:33:47.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-09 00:33:47.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:47.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:47.201][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-09 00:33:47.203][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-09 00:33:47.205][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:47.207][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:47.210][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-09 00:33:47.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-09 00:33:47.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:47.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:47.218][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-09 00:33:47.220][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-09 00:33:47.222][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:47.224][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:47.226][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-09 00:33:47.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-09 00:33:47.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:47.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:47.234][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-09 00:33:47.236][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-09 00:33:47.238][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:47.240][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:47.243][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-09 00:33:47.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-09 00:33:47.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:47.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:47.250][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-09 00:33:47.251][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-09 00:33:47.253][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:47.254][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:47.256][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-09 00:33:47.257][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:47.258][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:47.259][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:47.261][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-09 00:33:47.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:47.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:47.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:47.267][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:47.268][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:47.269][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:47.270][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:47.272][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:47.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:47.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:47.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:47.278][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-09 00:33:47.280][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-09 00:33:47.282][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:47.284][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:47.288][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-09 00:33:47.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-09 00:33:47.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:47.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:47.297][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-09 00:33:47.299][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-09 00:33:47.302][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:47.304][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:47.306][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-09 00:33:47.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-09 00:33:47.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:47.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:47.315][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-09 00:33:47.318][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-09 00:33:47.320][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:47.328][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:47.331][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-09 00:33:47.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-09 00:33:47.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:47.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:47.341][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:47.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:47.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:47.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:47.358][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:47.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:47.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:47.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:47.372][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:47.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:47.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:47.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:47.382][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:47.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:47.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:47.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:47.395][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:47.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:47.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:47.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:47.412][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:47.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:47.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:47.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:47.422][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:47.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:47.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:47.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:47.433][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:47.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:47.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:47.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:47.443][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:47.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:47.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:47.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:47.453][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:47.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:47.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:47.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:47.463][self$createEntryFromContent] Accession numbers: 62447.
biodb.TRACE[2025-09-09 00:33:47.466][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:47.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:47.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:47.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:47.473][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:47.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:47.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:47.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:47.482][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:47.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:47.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:47.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:47.532][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".
biodb.DEBUG[2025-09-09 00:33:47.539][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-09-09 00:33:47.542][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-09-09 00:33:47.545][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-09-09 00:33:47.548][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-09-09 00:33:47.555][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:47.557][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:47.559][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:47.570][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:47.572][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:47.574][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:47.576][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:47.579][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:47.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:47.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:47.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:47.587][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:47.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:47.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:47.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:47.774][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:47.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:47.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:47.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:47.784][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:47.786][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:47.792][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:47.802][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:47.804][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:47.806][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:47.808][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:47.811][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:47.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:47.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:47.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:47.821][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:47.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:47.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:47.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:47.832][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:47.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:47.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:47.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:47.849][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:47.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:47.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:47.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:47.858][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:47.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:47.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:47.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:47.868][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:47.870][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:47.872][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:47.882][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:47.884][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:47.886][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:47.888][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:47.890][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:47.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:47.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:47.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:47.900][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:47.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:47.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:47.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:47.911][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:47.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:47.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:47.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:47.921][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:47.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:47.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:47.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:47.931][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:47.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:47.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:47.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:47.940][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:47.942][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:47.944][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:47.956][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:47.958][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:47.960][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:47.962][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:47.964][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:47.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:47.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:47.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:47.974][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:47.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:47.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:47.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:47.984][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:47.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:47.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:47.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:47.993][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:47.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:47.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:48.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:48.002][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:48.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:48.011][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:48.012][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:48.014][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:48.024][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:48.025][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:48.027][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:48.029][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:48.032][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:48.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:48.040][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:48.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:48.046][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:48.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:48.056][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:48.058][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:48.061][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:48.073][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:48.076][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:48.078][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:48.080][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:48.084][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:48.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:48.095][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:48.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:48.106][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:48.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:48.117][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:48.119][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:48.121][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:48.133][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:48.136][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:48.138][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:48.140][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:48.143][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:48.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:48.153][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:48.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:48.164][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:48.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:48.174][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:48.177][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:48.179][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:48.191][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:48.194][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:48.196][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:48.199][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:48.202][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:48.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:48.213][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:48.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:48.222][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:48.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:48.233][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:48.235][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:48.237][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:48.249][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:48.251][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:48.253][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:48.255][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:48.258][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:48.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:48.268][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:48.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:48.279][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:48.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:48.290][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:48.293][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:48.295][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:48.309][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:48.311][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:48.314][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:48.317][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:48.320][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:48.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:48.331][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:48.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:48.342][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:48.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:48.352][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:48.354][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:48.356][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:48.368][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:48.370][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:48.373][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:48.375][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:48.378][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:48.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:48.389][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:48.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:48.399][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:48.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:48.410][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:48.412][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:48.414][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:48.427][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:48.429][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:48.432][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:48.433][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.TRACE[2025-09-09 00:33:48.437][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:48.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:48.447][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:48.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:48.457][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:48.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:48.465][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:48.468][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:48.470][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:48.482][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:48.484][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:48.486][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:48.488][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:48.490][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:48.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:48.497][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:48.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:48.506][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:48.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:48.516][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:48.518][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:48.520][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:48.533][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:48.535][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:48.538][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:48.540][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:48.544][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:48.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:48.555][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:48.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:48.566][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:48.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:48.577][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:48.580][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:48.582][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:48.595][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:48.597][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:48.600][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:48.603][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:48.606][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:48.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:48.615][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:48.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:48.627][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:48.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:48.636][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:48.638][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:48.640][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:48.649][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:48.652][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:48.661][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:48.663][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:48.665][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:48.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:48.673][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:48.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:48.682][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:48.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:48.690][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:48.692][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:48.694][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:48.705][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:48.707][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:48.709][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:48.710][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:48.713][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:48.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:48.722][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:48.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:48.730][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:48.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:48.736][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:48.737][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:48.739][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:48.749][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:48.751][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:48.753][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:48.755][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:48.757][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:48.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:48.766][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:48.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:48.775][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:48.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:48.783][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:48.784][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:48.786][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:48.796][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:48.798][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:48.800][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:48.802][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:48.805][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:48.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:48.813][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:48.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:48.821][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:48.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:48.828][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:48.829][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:48.830][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:48.840][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:48.842][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:48.843][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:48.845][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:48.847][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:48.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:48.856][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:48.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:48.864][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:48.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:48.907][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".
biodb.DEBUG[2025-09-09 00:33:48.913][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-09-09 00:33:48.915][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-09-09 00:33:48.918][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-09-09 00:33:48.920][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-09-09 00:33:48.925][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:48.927][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:48.929][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:48.938][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:48.940][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:48.942][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:48.944][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:48.947][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:48.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:48.956][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:48.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:48.965][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:48.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:48.973][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:48.974][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:48.976][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:48.986][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:48.989][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:48.991][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:48.993][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:48.995][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:48.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:49.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:49.002][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:49.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:49.012][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:49.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:49.021][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:49.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:49.029][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:49.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:49.038][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:49.040][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:49.042][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:49.053][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:49.055][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:49.057][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:49.073][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:49.076][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:49.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:49.085][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:49.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:49.094][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:49.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:49.106][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:49.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:49.114][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:49.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:49.123][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:49.126][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:49.128][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:49.139][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:49.141][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:49.144][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:49.146][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:49.148][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:49.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:49.160][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:49.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:49.175][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:49.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:49.185][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:49.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:49.194][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:49.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:49.204][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:49.206][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:49.208][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:49.219][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:49.221][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:49.224][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:49.226][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:49.228][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:49.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:49.237][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:49.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:49.245][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:49.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:49.253][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:49.255][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:49.257][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:49.268][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:49.270][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:49.272][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:49.274][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:49.277][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:49.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:49.286][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:49.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:49.296][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:49.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:49.305][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:49.307][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:49.309][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:49.320][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:49.348][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:49.350][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:49.352][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:49.355][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:49.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:49.365][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:49.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:49.374][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:49.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:49.383][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:49.385][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:49.387][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:49.397][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:49.399][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:49.401][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:49.403][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:49.406][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:49.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:49.415][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:49.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:49.423][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:49.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:49.432][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:49.434][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:49.436][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:49.447][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:49.449][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:49.450][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:49.452][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:49.455][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:49.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:49.463][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:49.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:49.490][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:49.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:49.498][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:49.499][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:49.501][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:49.512][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:49.514][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:49.516][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:49.518][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:49.521][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:49.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:49.529][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:49.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:49.538][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:49.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:49.547][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:49.549][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:49.551][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:49.562][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:49.564][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:49.566][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:49.568][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.TRACE[2025-09-09 00:33:49.571][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:49.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:49.597][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:49.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:49.607][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:49.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:49.616][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:49.618][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:49.621][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:49.632][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:49.634][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:49.636][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:49.639][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:49.642][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:49.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:49.650][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:49.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:49.704][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:49.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:49.713][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:49.716][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:49.718][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:49.728][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:49.730][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:49.732][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:49.734][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[2025-09-09 00:33:49.737][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:49.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:49.748][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:49.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:49.758][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:49.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:49.776][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:49.779][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:49.781][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:49.793][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:49.796][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:49.798][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:49.800][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:49.803][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:49.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:49.814][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:49.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:49.824][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:49.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:49.834][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:49.836][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:49.838][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:49.849][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:49.851][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:49.854][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:49.856][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:49.859][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:49.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:49.869][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:49.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:49.879][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:49.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:49.889][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:49.892][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:49.894][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:49.906][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:49.928][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:49.931][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:49.933][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:49.935][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:49.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:49.945][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:49.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:49.955][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:49.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:49.965][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:49.967][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:49.970][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:49.981][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:49.984][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:49.987][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:49.989][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:49.992][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:49.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:50.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:50.003][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:50.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:50.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:50.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:50.013][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:50.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:50.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:50.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:50.027][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:50.029][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:50.031][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:50.043][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:50.045][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:50.047][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:50.049][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:50.052][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:50.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:50.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:50.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:50.064][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:50.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:50.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:50.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:50.074][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:50.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:50.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:50.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:50.084][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:50.086][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:50.087][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:50.099][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:50.101][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:50.103][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:50.105][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:50.108][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:50.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:50.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:50.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:50.117][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:50.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:50.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:50.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:50.127][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:50.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:50.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:50.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:50.136][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:50.138][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:50.140][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:50.174][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:50.177][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:50.179][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:50.182][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:50.185][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:50.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:50.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:50.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:50.196][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:50.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:50.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:50.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:50.207][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:50.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:50.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:50.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:50.253][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-09-09 00:33:50.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-09-09 00:33:50.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:50.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-09-09 00:33:50.280][biodb::testThat]
biodb.INFO [2025-09-09 00:33:50.282][biodb::testThat] Running test function  test_annotateMzValues_input_vector  (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2025-09-09 00:33:50.285][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-09 00:33:50.287][biodb::testThat]
biodb.TRACE[2025-09-09 00:33:50.294][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-09-09 00:33:50.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-09-09 00:33:50.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:50.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:50.303][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:50.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:50.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:50.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:50.314][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:50.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:50.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:50.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:50.324][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:50.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:50.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:50.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:50.333][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:50.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:50.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:50.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:50.348][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:50.350][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:50.352][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:50.364][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:50.366][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:50.369][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:50.371][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[2025-09-09 00:33:50.377][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".
biodb.DEBUG[2025-09-09 00:33:50.435][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-09-09 00:33:50.503][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2025-09-09 00:33:50.506][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-09-09 00:33:50.509][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2025-09-09 00:33:50.514][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:50.517][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:50.529][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:50.551][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:50.553][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:50.555][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:50.556][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".
biodb.TRACE[2025-09-09 00:33:50.558][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:50.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:50.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:50.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:50.567][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:50.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:50.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:50.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:50.578][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:50.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:50.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:50.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:50.589][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".
biodb.DEBUG[2025-09-09 00:33:50.597][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-09-09 00:33:50.599][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2025-09-09 00:33:50.611][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-09-09 00:33:50.614][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2025-09-09 00:33:50.619][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:50.621][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:50.623][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:50.634][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:50.636][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:50.639][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:50.641][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:50.644][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:50.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:50.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:50.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:50.654][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:50.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:50.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:50.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:50.664][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:50.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:50.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:50.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:50.674][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:50.676][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:50.678][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:50.689][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:50.691][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:50.693][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:50.696][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:50.698][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:50.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:50.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:50.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:50.708][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:50.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:50.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:50.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:50.736][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:50.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:50.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:50.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:50.746][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-09-09 00:33:50.749][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:50.751][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:50.753][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:50.794][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:50.796][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:50.798][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:50.801][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:50.804][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:50.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:50.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:50.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:50.814][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:50.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:50.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:50.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:50.825][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-09 00:33:50.827][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-09 00:33:50.829][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-09 00:33:50.834][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-09 00:33:50.836][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-09 00:33:50.838][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:50.839][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:50.842][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:50.844][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:50.847][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:50.849][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:50.850][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:50.853][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:50.855][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-09 00:33:50.858][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-09 00:33:50.860][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:50.863][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:50.865][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:50.867][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:50.869][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-09 00:33:50.872][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:50.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:50.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:50.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:50.881][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:50.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:50.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:50.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:50.890][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:50.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:50.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:50.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:50.924][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-09-09 00:33:50.926][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:50.929][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:50.931][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:50.942][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:50.944][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:50.946][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:50.949][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:50.951][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:50.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:50.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:50.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:50.961][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:50.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:50.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:50.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:50.984][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-09 00:33:50.987][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-09 00:33:50.989][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-09 00:33:50.991][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-09 00:33:50.993][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-09 00:33:50.995][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:50.997][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:51.000][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:51.002][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:51.004][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:51.007][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:51.009][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:51.011][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:51.013][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-09 00:33:51.016][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-09 00:33:51.019][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:51.021][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:51.023][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:51.025][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:51.028][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-09 00:33:51.030][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:51.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:51.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:51.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:51.040][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:51.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:51.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:51.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:51.050][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:51.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:51.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:51.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:51.063][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-09-09 00:33:51.067][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:51.070][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:51.072][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:51.091][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:51.093][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:51.095][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:51.097][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:51.102][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:51.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:51.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:51.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:51.125][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:51.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:51.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:51.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:51.139][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-09 00:33:51.142][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-09 00:33:51.144][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-09 00:33:51.147][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-09 00:33:51.149][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-09 00:33:51.151][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:51.154][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:51.157][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:51.159][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:51.162][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:51.165][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:51.169][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:51.171][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:51.175][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-09 00:33:51.177][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-09 00:33:51.178][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:51.181][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:51.183][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:51.185][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:51.187][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-09 00:33:51.190][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:51.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:51.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:51.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:51.199][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:51.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:51.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:51.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:51.208][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:51.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:51.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:51.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:51.217][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-09-09 00:33:51.219][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-09-09 00:33:51.221][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-09-09 00:33:51.243][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:51.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:51.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:51.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:51.251][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:51.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:51.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:51.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:51.261][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:51.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:51.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:51.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:51.270][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:51.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:51.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:51.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:51.418][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:51.420][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:51.422][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:51.433][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:51.435][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:51.437][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:51.440][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[2025-09-09 00:33:51.446][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".
biodb.DEBUG[2025-09-09 00:33:51.455][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-09-09 00:33:51.458][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2025-09-09 00:33:51.461][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-09-09 00:33:51.464][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2025-09-09 00:33:51.471][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".
biodb.DEBUG[2025-09-09 00:33:51.480][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-09-09 00:33:51.483][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2025-09-09 00:33:51.486][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-09-09 00:33:51.489][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2025-09-09 00:33:51.495][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:51.497][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:51.499][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:51.510][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:51.520][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:51.522][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:51.524][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:51.527][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:51.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:51.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:51.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:51.536][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:51.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:51.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:51.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:51.544][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:51.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:51.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:51.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:51.571][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:51.574][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:51.576][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:51.627][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:51.629][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:51.631][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:51.633][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.TRACE[2025-09-09 00:33:51.636][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:51.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:51.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:51.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:51.646][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:51.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:51.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:51.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:51.656][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:51.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:51.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:51.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:51.668][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:51.670][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:51.675][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:51.687][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:51.689][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:51.691][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:51.693][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:51.696][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:51.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:51.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:51.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:51.705][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:51.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:51.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:51.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:51.715][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:51.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:51.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:51.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:51.790][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-09-09 00:33:51.863][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:51.865][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:51.868][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:51.881][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:51.883][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:51.886][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:51.889][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:51.892][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:51.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:51.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:51.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:51.904][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:51.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:51.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:51.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:51.916][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-09 00:33:51.919][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-09 00:33:51.921][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-09 00:33:51.923][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-09 00:33:51.925][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-09 00:33:51.928][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:51.930][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:51.933][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:51.935][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:51.937][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:51.940][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:51.942][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:51.944][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:51.946][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-09 00:33:51.948][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-09 00:33:51.950][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:51.953][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:51.955][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:51.957][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:51.959][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-09 00:33:51.962][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:51.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:51.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:51.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:51.972][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:51.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:51.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:51.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:51.982][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:51.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:51.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:51.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:51.993][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-09-09 00:33:51.996][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:51.998][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:52.000][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:52.012][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:52.014][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:52.016][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:52.018][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:52.053][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:52.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:52.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:52.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:52.062][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:52.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:52.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:52.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:52.128][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-09 00:33:52.131][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-09 00:33:52.133][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-09 00:33:52.136][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-09 00:33:52.138][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-09 00:33:52.141][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:52.143][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:52.145][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:52.147][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:52.150][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:52.153][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:52.155][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:52.157][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:52.159][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-09 00:33:52.188][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-09 00:33:52.190][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:52.193][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:52.195][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:52.197][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:52.200][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-09 00:33:52.203][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:52.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:52.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:52.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:52.212][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:52.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:52.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:52.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:52.221][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:52.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:52.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:52.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:52.250][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-09-09 00:33:52.253][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:52.255][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:52.256][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:52.297][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:52.299][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:52.301][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:52.303][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:52.306][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:52.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:52.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:52.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:52.313][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:52.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:52.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:52.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:52.322][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-09 00:33:52.324][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-09 00:33:52.326][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-09 00:33:52.328][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-09 00:33:52.330][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-09 00:33:52.332][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:52.335][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:52.337][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:52.339][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:52.342][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:52.344][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:52.346][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:52.349][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:52.351][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-09 00:33:52.353][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-09 00:33:52.355][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:52.358][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:52.360][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:52.363][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:52.366][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-09 00:33:52.368][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:52.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:52.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:52.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:52.377][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:52.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:52.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:52.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:52.387][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:52.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:52.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:52.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:52.398][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-09-09 00:33:52.400][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-09-09 00:33:52.402][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-09-09 00:33:52.422][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-09-09 00:33:52.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-09-09 00:33:52.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:52.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-09-09 00:33:52.447][biodb::testThat]
biodb.INFO [2025-09-09 00:33:52.449][biodb::testThat] Running test function  test_annotateMzValues_ppm_tol  (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2025-09-09 00:33:52.452][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-09 00:33:52.454][biodb::testThat]
biodb.TRACE[2025-09-09 00:33:52.461][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-09-09 00:33:52.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-09-09 00:33:52.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:52.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:52.470][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:52.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:52.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:52.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:52.479][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:52.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:52.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:52.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:52.488][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:52.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:52.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:52.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:52.497][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:52.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:52.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:52.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:52.510][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:52.512][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:52.514][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:52.525][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:52.527][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:52.529][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:52.531][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:52.538][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".
biodb.DEBUG[2025-09-09 00:33:52.546][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-09-09 00:33:52.550][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2025-09-09 00:33:52.553][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-09-09 00:33:52.557][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2025-09-09 00:33:52.561][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:52.564][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:52.566][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:52.576][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:52.578][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:52.581][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:52.588][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:52.591][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:52.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:52.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:52.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:52.600][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:52.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:52.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:52.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:52.609][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:52.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:52.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:52.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:52.620][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".
biodb.DEBUG[2025-09-09 00:33:52.627][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-09-09 00:33:52.631][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2025-09-09 00:33:52.633][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-09-09 00:33:52.636][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2025-09-09 00:33:52.641][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:52.643][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:52.645][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:52.654][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:52.656][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:52.658][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:52.660][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:52.662][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:52.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:52.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:52.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:52.671][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:52.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:52.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:52.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:52.679][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:52.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:52.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:52.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:52.688][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:52.690][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:52.692][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:52.703][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:52.705][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:52.707][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:52.709][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:52.712][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:52.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:52.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:52.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:52.719][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:52.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:52.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:52.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:52.728][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:52.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:52.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:52.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:52.738][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-09-09 00:33:52.741][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:52.743][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:52.745][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:52.756][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:52.759][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:52.760][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:52.762][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:52.765][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:52.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:52.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:52.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:52.773][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:52.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:52.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:52.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:52.782][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-09 00:33:52.784][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-09 00:33:52.786][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-09 00:33:52.788][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-09 00:33:52.790][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-09 00:33:52.793][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:52.795][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:52.797][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:52.799][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:52.802][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:52.804][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:52.806][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:52.808][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:52.811][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-09 00:33:52.813][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-09 00:33:52.815][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:52.818][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:52.820][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:52.822][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:52.823][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-09 00:33:52.826][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:52.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:52.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:52.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:52.835][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:52.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:52.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:52.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:52.844][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:52.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:52.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:52.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:52.854][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-09-09 00:33:52.857][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:52.860][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:52.862][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:52.873][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:52.875][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:52.877][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:52.879][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:52.882][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:52.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:52.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:52.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:52.891][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:52.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:52.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:52.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:52.900][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-09 00:33:52.902][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-09 00:33:52.904][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-09 00:33:52.906][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-09 00:33:52.908][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-09 00:33:52.910][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:52.913][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:52.915][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:52.917][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:52.919][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:52.922][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:52.924][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:52.926][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:52.928][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-09 00:33:52.930][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-09 00:33:52.933][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:52.935][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:52.937][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:52.939][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:52.941][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-09 00:33:52.944][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:52.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:52.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:52.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:52.953][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:52.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:52.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:52.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:52.962][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:52.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:52.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:52.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:52.972][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-09-09 00:33:52.974][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:52.976][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:52.978][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:52.989][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:52.991][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:52.993][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:52.995][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:52.998][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:53.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:53.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:53.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:53.007][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:53.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:53.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:53.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:53.013][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-09 00:33:53.015][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-09 00:33:53.017][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-09 00:33:53.019][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-09 00:33:53.021][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-09 00:33:53.024][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:53.026][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:53.029][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:53.031][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:53.033][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:53.035][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:53.037][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:53.039][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:53.042][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-09 00:33:53.044][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-09 00:33:53.046][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:53.049][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:53.051][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:53.053][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:53.055][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-09 00:33:53.057][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:53.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:53.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:53.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:53.066][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:53.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:53.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:53.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:53.075][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:53.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:53.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:53.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:53.085][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-09-09 00:33:53.087][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-09-09 00:33:53.089][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-09-09 00:33:53.108][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:53.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:53.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:53.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:53.118][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:53.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:53.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:53.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:53.127][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:53.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:53.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:53.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:53.136][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:53.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:53.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:53.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:53.149][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:53.152][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:53.154][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:53.164][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:53.167][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:53.169][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:53.170][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:53.176][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".
biodb.DEBUG[2025-09-09 00:33:53.184][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-09-09 00:33:53.187][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2025-09-09 00:33:53.189][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-09-09 00:33:53.192][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2025-09-09 00:33:53.199][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".
biodb.DEBUG[2025-09-09 00:33:53.207][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-09-09 00:33:53.210][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2025-09-09 00:33:53.213][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-09-09 00:33:53.216][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2025-09-09 00:33:53.221][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:53.223][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:53.225][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:53.236][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:53.246][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:53.249][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:53.251][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:53.253][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:53.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:53.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:53.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:53.262][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:53.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:53.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:53.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:53.271][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:53.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:53.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:53.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:53.279][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:53.280][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:53.282][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:53.293][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:53.295][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:53.297][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:53.299][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:53.301][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:53.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:53.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:53.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:53.309][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:53.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:53.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:53.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:53.318][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:53.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:53.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:53.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:53.327][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:53.329][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:53.331][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:53.342][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:53.344][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:53.346][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:53.348][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:53.351][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:53.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:53.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:53.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:53.360][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:53.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:53.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:53.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:53.369][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:53.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:53.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:53.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:53.376][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-09-09 00:33:53.380][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:53.381][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:53.383][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:53.394][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:53.396][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:53.399][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:53.401][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[2025-09-09 00:33:53.403][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:53.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:53.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:53.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:53.419][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:53.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:53.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:53.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:53.430][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-09 00:33:53.432][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-09 00:33:53.435][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-09 00:33:53.438][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-09 00:33:53.440][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-09 00:33:53.442][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:53.445][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:53.447][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:53.452][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:53.454][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:53.456][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:53.459][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:53.461][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:53.463][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-09 00:33:53.466][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-09 00:33:53.469][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:53.471][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:53.473][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:53.475][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:53.478][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-09 00:33:53.480][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:53.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:53.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:53.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:53.493][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:53.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:53.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:53.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:53.503][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:53.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:53.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:53.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:53.513][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-09-09 00:33:53.516][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:53.518][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:53.520][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:53.531][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:53.534][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:53.536][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:53.538][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:53.541][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:53.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:53.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:53.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:53.551][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:53.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:53.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:53.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:53.560][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-09 00:33:53.563][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-09 00:33:53.565][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-09 00:33:53.567][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-09 00:33:53.569][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-09 00:33:53.572][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:53.574][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:53.576][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:53.578][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:53.581][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:53.584][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:53.586][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:53.588][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:53.591][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-09 00:33:53.594][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-09 00:33:53.596][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:53.598][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:53.600][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:53.603][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:53.605][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-09 00:33:53.607][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:53.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:53.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:53.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:53.618][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:53.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:53.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:53.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:53.630][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:53.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:53.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:53.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:53.640][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-09-09 00:33:53.642][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:53.645][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:53.647][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:53.659][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:53.661][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:53.663][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:53.665][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:53.668][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:53.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:53.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:53.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:53.676][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:53.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:53.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:53.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:53.684][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-09 00:33:53.686][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-09 00:33:53.688][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-09 00:33:53.690][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-09 00:33:53.693][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-09 00:33:53.695][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:53.698][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:53.700][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:53.702][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:53.705][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:53.707][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:53.709][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:53.712][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:53.714][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-09 00:33:53.716][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-09 00:33:53.719][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:53.721][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:53.723][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:53.725][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:53.728][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-09 00:33:53.730][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:53.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:53.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:53.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:53.737][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:53.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:53.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:53.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:53.747][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:53.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:53.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:53.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:53.756][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-09-09 00:33:53.758][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-09-09 00:33:53.760][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-09-09 00:33:53.779][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-09-09 00:33:53.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-09-09 00:33:53.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:53.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-09-09 00:33:53.795][biodb::testThat]
biodb.INFO [2025-09-09 00:33:53.796][biodb::testThat] Running test function  test_annotateMzValues_input_dataframe_untouched  (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2025-09-09 00:33:53.798][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-09 00:33:53.800][biodb::testThat]
biodb.TRACE[2025-09-09 00:33:53.806][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-09-09 00:33:53.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-09-09 00:33:53.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:53.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:53.816][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:53.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:53.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:53.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:53.826][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:53.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:53.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:53.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:53.837][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:53.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:53.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:53.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:53.846][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:53.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:53.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:53.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:53.865][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:53.867][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:53.869][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:53.880][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:53.883][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:53.885][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:53.887][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:53.893][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".
biodb.DEBUG[2025-09-09 00:33:53.901][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-09-09 00:33:53.904][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2025-09-09 00:33:53.906][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-09-09 00:33:53.909][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2025-09-09 00:33:53.914][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:53.916][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:53.918][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:53.930][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:53.932][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:53.935][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:53.937][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:53.939][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:53.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:53.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:53.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:53.947][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:53.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:53.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:53.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:53.957][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:53.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:53.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:53.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:53.972][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".
biodb.DEBUG[2025-09-09 00:33:53.979][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-09-09 00:33:53.982][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2025-09-09 00:33:53.985][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-09-09 00:33:53.988][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2025-09-09 00:33:53.993][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:53.995][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:53.997][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:54.007][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:54.009][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:54.011][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:54.013][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:54.015][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:54.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:54.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:54.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:54.023][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:54.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:54.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:54.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:54.033][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:54.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:54.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:54.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:54.043][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:54.045][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:54.047][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:54.057][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:54.059][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:54.061][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:54.063][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:54.066][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:54.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:54.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:54.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:54.083][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:54.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:54.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:54.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:54.091][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:54.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:54.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:54.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:54.101][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-09-09 00:33:54.103][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:54.105][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:54.107][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:54.117][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:54.119][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:54.121][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:54.123][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[2025-09-09 00:33:54.126][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:54.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:54.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:54.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:54.135][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:54.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:54.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:54.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:54.144][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-09 00:33:54.147][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-09 00:33:54.149][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-09 00:33:54.151][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-09 00:33:54.153][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-09 00:33:54.155][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:54.158][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:54.160][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:54.162][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:54.165][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:54.168][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:54.170][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:54.172][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:54.173][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-09 00:33:54.175][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-09 00:33:54.177][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:54.179][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:54.181][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:54.183][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:54.186][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-09 00:33:54.188][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:54.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:54.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:54.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:54.198][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:54.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:54.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:54.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:54.206][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:54.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:54.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:54.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:54.215][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-09-09 00:33:54.217][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:54.219][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:54.221][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:54.232][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:54.234][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:54.236][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:54.237][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:54.239][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:54.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:54.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:54.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:54.244][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:54.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:54.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:54.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:54.251][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-09 00:33:54.253][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-09 00:33:54.256][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-09 00:33:54.258][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-09 00:33:54.260][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-09 00:33:54.263][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:54.265][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:54.267][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:54.268][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:54.270][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:54.273][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:54.275][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:54.277][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:54.279][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-09 00:33:54.282][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-09 00:33:54.284][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:54.286][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:54.287][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:54.288][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:54.290][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-09 00:33:54.292][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:54.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:54.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:54.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:54.301][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:54.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:54.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:54.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:54.306][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:54.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:54.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:54.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:54.312][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-09-09 00:33:54.314][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:54.315][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:54.316][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:54.324][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:54.326][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:54.328][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:54.330][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:54.332][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:54.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:54.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:54.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:54.339][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:54.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:54.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:54.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:54.346][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-09 00:33:54.348][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-09 00:33:54.350][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-09 00:33:54.352][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-09 00:33:54.354][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-09 00:33:54.357][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:54.359][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:54.361][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:54.363][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:54.366][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:54.368][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:54.370][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:54.372][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:54.374][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-09 00:33:54.376][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-09 00:33:54.377][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:54.378][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:54.380][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:54.381][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:54.384][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-09 00:33:54.387][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:54.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:54.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:54.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:54.394][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:54.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:54.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:54.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:54.399][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:54.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:54.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:54.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:54.405][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-09-09 00:33:54.406][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-09-09 00:33:54.408][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-09-09 00:33:54.449][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:54.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:54.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:54.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:54.460][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:54.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:54.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:54.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:54.470][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:54.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:54.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:54.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:54.480][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:54.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:54.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:54.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:54.501][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:54.503][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:54.506][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:54.517][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:54.519][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:54.521][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:54.523][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:54.529][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".
biodb.DEBUG[2025-09-09 00:33:54.536][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-09-09 00:33:54.540][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2025-09-09 00:33:54.543][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-09-09 00:33:54.546][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2025-09-09 00:33:54.552][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".
biodb.DEBUG[2025-09-09 00:33:54.561][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-09-09 00:33:54.564][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2025-09-09 00:33:54.567][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-09-09 00:33:54.569][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2025-09-09 00:33:54.574][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:54.576][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:54.577][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:54.586][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:54.587][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:54.588][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:54.590][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:54.592][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:54.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:54.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:54.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:54.600][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:54.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:54.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:54.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:54.609][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:54.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:54.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:54.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:54.617][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:54.618][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:54.620][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:54.631][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:54.633][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:54.635][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:54.637][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.TRACE[2025-09-09 00:33:54.639][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:54.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:54.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:54.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:54.648][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:54.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:54.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:54.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:54.657][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:54.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:54.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:54.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:54.666][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:54.668][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:54.670][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:54.679][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:54.681][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:54.682][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:54.684][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.TRACE[2025-09-09 00:33:54.685][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:54.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:54.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:54.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:54.691][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:54.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:54.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:54.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:54.696][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:54.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:54.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:54.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:54.702][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-09-09 00:33:54.706][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:54.708][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:54.709][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:54.720][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:54.722][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:54.724][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:54.726][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:54.728][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:54.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:54.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:54.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:54.735][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:54.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:54.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:54.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:54.744][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-09 00:33:54.745][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-09 00:33:54.746][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-09 00:33:54.748][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-09 00:33:54.750][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-09 00:33:54.752][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:54.754][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:54.756][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:54.757][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:54.759][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:54.761][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:54.763][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:54.765][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:54.767][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-09 00:33:54.769][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-09 00:33:54.771][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:54.773][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:54.775][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:54.777][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:54.779][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-09 00:33:54.781][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:54.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:54.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:54.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:54.794][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:54.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:54.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:54.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:54.802][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:54.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:54.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:54.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:54.811][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-09-09 00:33:54.813][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:54.815][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:54.817][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:54.828][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:54.830][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:54.832][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:54.834][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:54.837][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:54.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:54.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:54.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:54.846][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:54.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:54.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:54.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:54.856][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-09 00:33:54.858][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-09 00:33:54.859][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-09 00:33:54.861][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-09 00:33:54.862][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-09 00:33:54.864][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:54.865][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:54.867][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:54.869][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:54.871][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:54.873][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:54.875][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:54.877][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:54.880][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-09 00:33:54.882][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-09 00:33:54.884][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:54.886][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:54.888][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:54.890][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:54.893][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-09 00:33:54.894][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:54.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:54.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:54.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:54.902][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:54.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:54.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:54.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:54.911][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:54.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:54.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:54.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:54.919][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-09-09 00:33:54.921][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:54.923][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:54.925][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:54.936][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:54.938][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:54.940][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:54.942][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[2025-09-09 00:33:54.945][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:54.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:54.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:54.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:54.953][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:54.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:54.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:54.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:54.960][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-09 00:33:54.962][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-09 00:33:54.964][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-09 00:33:54.966][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-09 00:33:54.968][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-09 00:33:54.970][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:54.973][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:54.975][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:54.977][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:54.979][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:54.982][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:54.984][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:54.986][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:54.988][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-09 00:33:54.989][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-09 00:33:54.990][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:54.992][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:54.993][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:54.995][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:54.998][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-09 00:33:55.000][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:55.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:55.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:55.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:55.007][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:55.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:55.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:55.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:55.015][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:55.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:55.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:55.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:55.025][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-09-09 00:33:55.028][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-09-09 00:33:55.030][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-09-09 00:33:55.074][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-09-09 00:33:55.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-09-09 00:33:55.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:55.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-09-09 00:33:55.090][biodb::testThat]
biodb.INFO [2025-09-09 00:33:55.092][biodb::testThat] Running test function  test.wrong.entry  (" Wrong entry gives NULL ").
biodb.INFO [2025-09-09 00:33:55.094][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-09 00:33:55.096][biodb::testThat]
biodb.DEBUG[2025-09-09 00:33:55.099][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2025-09-09 00:33:55.101][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-09-09 00:33:55.104][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2025-09-09 00:33:55.107][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-09-09 00:33:55.110][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGA.xml".
biodb.DEBUG[2025-09-09 00:33:55.112][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-09 00:33:55.114][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-09 00:33:55.116][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-09 00:33:55.120][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:55.122][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:55.124][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:55.132][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:55.134][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:55.136][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:55.138][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:55.142][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:55.145][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:55.147][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:55.149][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:55.151][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:55.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:55.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:55.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:55.160][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-09 00:33:55.163][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-09 00:33:55.165][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:55.167][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:55.170][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-09 00:33:55.172][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-09 00:33:55.174][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:55.176][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:55.179][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-09 00:33:55.182][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-09 00:33:55.184][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:55.186][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:55.189][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-09 00:33:55.191][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-09 00:33:55.193][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:55.195][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:55.198][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-09 00:33:55.201][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-09 00:33:55.204][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:55.206][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:55.209][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-09 00:33:55.211][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:55.213][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:55.215][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:55.218][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:55.220][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:55.222][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:55.224][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:55.227][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-09 00:33:55.229][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-09 00:33:55.231][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:55.233][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:55.236][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-09 00:33:55.238][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-09 00:33:55.239][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:55.241][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:55.243][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-09 00:33:55.246][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-09 00:33:55.248][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:55.250][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:55.253][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:55.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:55.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:55.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:55.262][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:55.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:55.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:55.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:55.271][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:55.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:55.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:55.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:55.279][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:55.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:55.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:55.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:55.288][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:55.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:55.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:55.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:55.296][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:55.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:55.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:55.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:55.304][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:55.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:55.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:55.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:55.312][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:55.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:55.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:55.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:55.321][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:55.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:55.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:55.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:55.328][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:55.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:55.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:55.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:55.337][self$createEntryFromContent] Accession numbers: .
biodb.DEBUG[2025-09-09 00:33:55.340][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2025-09-09 00:33:55.357][biodb::testThat]
biodb.INFO [2025-09-09 00:33:55.359][biodb::testThat] Running test function  test.wrong.entry.among.good.ones  (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2025-09-09 00:33:55.361][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-09 00:33:55.363][biodb::testThat]
biodb.DEBUG[2025-09-09 00:33:55.383][function(conn, opt)] IDS: [4]: "WRONGB, 15440, 2528, 7799"
biodb.DEBUG[2025-09-09 00:33:55.385][private$loadEntries] Creating entries from ids [3]: "WRONGB, 2528, 7799".
biodb.DEBUG[2025-09-09 00:33:55.387][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
biodb.TRACE[2025-09-09 00:33:55.391][cch$loadFileContent] Trying to load 3 files from cache: [3]: "WRONGB, 2528, 7799".
biodb.TRACE[2025-09-09 00:33:55.394][cch$loadFileContent] file.exist = [3]: "TRUE, TRUE, TRUE".
biodb.TRACE[2025-09-09 00:33:55.399][loadFileContents] Loaded 3 files from cache: [3]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGB.xml, /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2528.xml, /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7799.xml".
biodb.DEBUG[2025-09-09 00:33:55.400][conn$getEntryContent] 3 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-09 00:33:55.403][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2025-09-09 00:33:55.405][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2025-09-09 00:33:55.408][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:55.410][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:55.412][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:55.421][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:55.423][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:55.425][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:55.427][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[2025-09-09 00:33:55.432][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:55.433][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:55.434][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:55.436][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:55.438][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:55.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:55.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:55.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:55.447][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-09 00:33:55.449][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-09 00:33:55.451][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:55.453][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:55.455][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-09 00:33:55.458][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-09 00:33:55.460][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:55.462][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:55.465][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-09 00:33:55.468][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-09 00:33:55.469][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:55.471][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:55.472][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-09 00:33:55.474][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-09 00:33:55.475][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:55.476][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:55.478][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-09 00:33:55.479][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-09 00:33:55.481][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:55.482][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:55.484][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-09 00:33:55.485][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:55.487][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:55.488][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:55.490][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:55.492][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:55.494][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:55.497][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:55.499][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-09 00:33:55.502][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-09 00:33:55.504][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:55.505][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:55.508][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-09 00:33:55.510][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-09 00:33:55.512][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:55.520][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:55.523][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-09 00:33:55.525][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-09 00:33:55.527][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:55.529][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:55.531][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:55.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:55.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:55.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:55.536][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:55.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:55.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:55.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:55.541][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:55.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:55.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:55.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:55.549][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:55.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:55.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:55.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:55.558][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:55.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:55.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:55.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:55.567][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:55.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:55.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:55.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:55.575][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:55.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:55.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:55.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:55.583][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:55.584][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:55.585][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:55.597][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:55.599][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:55.601][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:55.603][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:33:55.608][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:55.610][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:55.612][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:55.614][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:55.617][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:55.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:55.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:55.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:55.626][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-09 00:33:55.628][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-09 00:33:55.631][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:55.632][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:55.634][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-09 00:33:55.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-09 00:33:55.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:55.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:55.643][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-09 00:33:55.645][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-09 00:33:55.646][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:55.647][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:55.650][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-09 00:33:55.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-09 00:33:55.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:55.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:55.659][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-09 00:33:55.662][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-09 00:33:55.664][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:55.665][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:55.668][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-09 00:33:55.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-09 00:33:55.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:55.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:55.677][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-09 00:33:55.679][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-09 00:33:55.681][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:55.683][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:55.685][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-09 00:33:55.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-09 00:33:55.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:55.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:55.693][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-09 00:33:55.694][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-09 00:33:55.696][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:55.697][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:55.700][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-09 00:33:55.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-09 00:33:55.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:55.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:55.707][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-09 00:33:55.709][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:55.710][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:55.712][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:55.715][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-09 00:33:55.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:55.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:55.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:55.724][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:55.726][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:55.728][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:55.730][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:55.732][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:55.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:55.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:55.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:55.742][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-09 00:33:55.745][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-09 00:33:55.747][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:55.749][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:55.752][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-09 00:33:55.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-09 00:33:55.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:55.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:55.759][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-09 00:33:55.761][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-09 00:33:55.763][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:55.765][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:55.768][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-09 00:33:55.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-09 00:33:55.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:55.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:55.778][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-09 00:33:55.780][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-09 00:33:55.781][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:55.784][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:55.787][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-09 00:33:55.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-09 00:33:55.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:55.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:55.797][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:55.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:55.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:55.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:55.807][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:55.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:55.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:55.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:55.817][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:55.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:55.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:55.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:55.827][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:55.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:55.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:55.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:55.837][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:55.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:55.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:55.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:55.846][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:55.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:55.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:55.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:55.854][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:55.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:55.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:55.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:55.863][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:55.864][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:55.866][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:55.875][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:55.877][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:55.879][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:55.881][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.TRACE[2025-09-09 00:33:55.886][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:55.888][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:55.890][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:55.892][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:55.894][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:55.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:55.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:55.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:55.903][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-09 00:33:55.906][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-09 00:33:55.908][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:55.910][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:55.912][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-09 00:33:55.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-09 00:33:55.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:55.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:55.922][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-09 00:33:55.924][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-09 00:33:55.926][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:55.929][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:55.932][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-09 00:33:55.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-09 00:33:55.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:55.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:55.940][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-09 00:33:55.942][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-09 00:33:55.944][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:55.946][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:55.949][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-09 00:33:55.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-09 00:33:55.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:55.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:55.958][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-09 00:33:55.960][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-09 00:33:55.962][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:55.963][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:55.966][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-09 00:33:55.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-09 00:33:55.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:55.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:55.975][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-09 00:33:55.977][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-09 00:33:55.979][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:55.981][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:55.984][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-09 00:33:55.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-09 00:33:55.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:55.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:55.993][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-09 00:33:55.995][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:55.996][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:55.999][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:56.001][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-09 00:33:56.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:33:56.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:56.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:56.010][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:56.012][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:56.014][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:56.015][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:56.017][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:56.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:56.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:56.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:56.024][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-09 00:33:56.026][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-09 00:33:56.028][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:56.030][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:56.033][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-09 00:33:56.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-09 00:33:56.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:56.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:56.042][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-09 00:33:56.045][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-09 00:33:56.047][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:56.049][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:56.051][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-09 00:33:56.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-09 00:33:56.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:56.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:56.061][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-09 00:33:56.062][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-09 00:33:56.067][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:56.069][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:56.072][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-09 00:33:56.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-09 00:33:56.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:56.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:56.082][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:56.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:56.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:56.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:56.092][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:56.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:56.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:56.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:56.101][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:56.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:56.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:56.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:56.112][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:33:56.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:33:56.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:56.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:56.122][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:56.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:56.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:56.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:56.131][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:56.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:56.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:56.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:56.138][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:56.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:56.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:56.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:56.144][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:56.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:56.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:56.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:56.153][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:56.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:56.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:56.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:56.161][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:56.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:56.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:56.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:56.170][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:56.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:56.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:56.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:56.180][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:56.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:56.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:56.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:56.188][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:56.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:56.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:56.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:56.197][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:56.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:56.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:56.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:56.206][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:56.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:56.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:56.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:56.212][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:33:56.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:33:56.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:56.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:33:56.220][self$createEntryFromContent] Accession numbers: , 2528, 7799.
biodb.DEBUG[2025-09-09 00:33:56.222][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2025-09-09 00:33:56.225][function(conn, opt)] Entries: [4]: "NULL, <environment>, <environment>, <environment>"
biodb.INFO [2025-09-09 00:33:56.258][biodb::testThat]
biodb.INFO [2025-09-09 00:33:56.260][biodb::testThat] Running test function  test.peak.table  (" The peak table is correct. ").
biodb.INFO [2025-09-09 00:33:56.262][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-09 00:33:56.264][biodb::testThat]
biodb.INFO [2025-09-09 00:33:56.315][biodb::testThat]
biodb.INFO [2025-09-09 00:33:56.316][biodb::testThat] Running test function  test.nb.entries  (" Nb entries is positive. ").
biodb.INFO [2025-09-09 00:33:56.318][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-09 00:33:56.320][biodb::testThat]
biodb.INFO [2025-09-09 00:33:56.338][biodb::testThat]
biodb.INFO [2025-09-09 00:33:56.340][biodb::testThat] Running test function  test.entry.ids  (" We can get a list of entry ids. ").
biodb.INFO [2025-09-09 00:33:56.342][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-09 00:33:56.344][biodb::testThat]
biodb.DEBUG[2025-09-09 00:33:56.349][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".
biodb.DEBUG[2025-09-09 00:33:56.356][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-09-09 00:33:56.359][cch$loadFileContent] Trying to load 1 files from cache: [1]: "aed2cd6d5d221333c0a30a9f8dbc41b4".
biodb.TRACE[2025-09-09 00:33:56.361][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-09-09 00:33:56.363][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/aed2cd6d5d221333c0a30a9f8dbc41b4.content".
biodb.TRACE[2025-09-09 00:33:56.390][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-09 00:33:56.391][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-09 00:33:56.394][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:56.396][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:33:56.398][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:56.401][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:33:56.403][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:33:56.405][ef$get] fields variable is a list.
biodb.INFO [2025-09-09 00:33:56.409][biodb::testThat]
biodb.INFO [2025-09-09 00:33:56.411][biodb::testThat] Running test function  test.annotateMzValues  (" annotateMzValues() works correctly. ").
biodb.INFO [2025-09-09 00:33:56.413][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-09 00:33:56.415][biodb::testThat]
biodb.ERROR[2025-09-09 00:33:56.442][conn$annotateMzValues] No column named "mz" was found inside data frame.
biodb.ERROR[2025-09-09 00:33:56.474][ef$checkIsDefined] Field(s) "foo" is/are not defined.
biodb.INFO [2025-09-09 00:33:56.500][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-09-09 00:33:56.503][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2025-09-09 00:33:56.505][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-09-09 00:33:56.507][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-09-09 00:33:56.509][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:56.511][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:56.513][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:56.515][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:56.516][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:56.517][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-09-09 00:33:56.539][biodb::testContext]
biodb.INFO [2025-09-09 00:33:56.541][biodb::testContext] ********************************************************************************
biodb.INFO [2025-09-09 00:33:56.543][biodb::testContext] Test context - Test conversions
biodb.INFO [2025-09-09 00:33:56.544][biodb::testContext] ********************************************************************************
biodb.INFO [2025-09-09 00:33:56.546][biodb::testContext]
biodb.INFO [2025-09-09 00:33:56.550][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.16.0.
biodb.DEBUG[2025-09-09 00:33:56.553][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-09-09 00:33:56.561][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-09 00:33:56.564][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-09-09 00:33:56.568][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-09-09 00:33:56.570][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:56.572][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:56.574][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:56.576][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-09-09 00:33:56.579][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-09-09 00:33:56.580][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:56.586][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:56.588][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:56.590][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-09-09 00:33:56.593][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-09-09 00:33:56.595][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:56.597][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:56.599][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:56.601][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-09-09 00:33:56.603][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-09-09 00:33:56.604][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-09-09 00:33:56.606][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:56.608][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:56.611][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:56.612][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-09-09 00:33:56.617][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-09-09 00:33:56.619][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-09-09 00:33:56.622][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:56.624][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:56.628][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:56.630][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-09-09 00:33:56.634][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-09-09 00:33:56.636][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:56.638][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:56.640][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:56.642][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-09-09 00:33:56.644][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-09-09 00:33:56.647][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-09-09 00:33:56.649][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:56.651][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:56.654][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:56.656][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-09-09 00:33:56.658][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-09-09 00:33:56.661][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:56.663][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:56.665][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:56.667][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-09-09 00:33:56.670][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-09-09 00:33:56.672][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-09-09 00:33:56.675][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:56.677][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:56.680][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:56.682][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-09-09 00:33:56.685][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-09-09 00:33:56.687][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-09-09 00:33:56.689][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-09-09 00:33:56.691][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-09-09 00:33:56.694][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-09-09 00:33:56.696][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:56.699][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:56.700][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:56.702][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-09-09 00:33:56.705][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-09-09 00:33:56.707][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:56.708][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:56.710][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:56.712][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-09-09 00:33:56.714][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-09-09 00:33:56.716][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:56.718][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:56.720][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:56.722][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-09-09 00:33:56.725][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-09-09 00:33:56.726][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:56.728][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:56.730][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:56.733][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-09-09 00:33:56.735][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-09-09 00:33:56.737][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:56.739][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:56.741][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[2025-09-09 00:33:56.743][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-09-09 00:33:56.746][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-09-09 00:33:56.748][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:56.749][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:56.751][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:56.753][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-09-09 00:33:56.755][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-09-09 00:33:56.771][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-09-09 00:33:56.773][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:56.775][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:56.777][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:56.779][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-09-09 00:33:56.782][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-09-09 00:33:56.784][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-09-09 00:33:56.786][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:56.788][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:56.790][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:56.792][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-09-09 00:33:56.796][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-09 00:33:56.798][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-09-09 00:33:56.800][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-09 00:33:56.802][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-09 00:33:56.804][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-09 00:33:56.806][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-09 00:33:56.808][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-09 00:33:56.810][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-09 00:33:56.812][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-09-09 00:33:56.814][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-09 00:33:56.817][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-09 00:33:56.819][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-09-09 00:33:56.821][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-09 00:33:56.823][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-09 00:33:56.825][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-09 00:33:56.827][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-09 00:33:56.827][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-09 00:33:56.827][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-09 00:33:56.827][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-09-09 00:33:56.827][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-09-09 00:33:56.830][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-09 00:33:56.832][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-09 00:33:56.834][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-09 00:33:56.836][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-09 00:33:56.838][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-09 00:33:56.840][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-09 00:33:56.842][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-09 00:33:56.844][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-09 00:33:56.846][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-09 00:33:56.848][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-09 00:33:56.850][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-09 00:33:56.853][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-09 00:33:56.855][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-09-09 00:33:56.859][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-09 00:33:56.861][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-09-09 00:33:56.863][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-09 00:33:56.866][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-09 00:33:56.868][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-09 00:33:56.871][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-09 00:33:56.873][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-09 00:33:56.875][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-09 00:33:56.878][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-09-09 00:33:56.880][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-09 00:33:56.883][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-09 00:33:56.885][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-09-09 00:33:56.887][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-09 00:33:56.890][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-09 00:33:56.892][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-09 00:33:56.894][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-09 00:33:56.894][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-09 00:33:56.894][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-09 00:33:56.894][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-09-09 00:33:56.894][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-09-09 00:33:56.896][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-09 00:33:56.899][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-09 00:33:56.901][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-09 00:33:56.903][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-09 00:33:56.905][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-09 00:33:56.907][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-09 00:33:56.909][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-09 00:33:56.912][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-09 00:33:56.914][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-09 00:33:56.916][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-09 00:33:56.918][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-09 00:33:56.921][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-09 00:33:56.923][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-09-09 00:33:56.927][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-09-09 00:33:56.930][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-09-09 00:33:56.932][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-09 00:33:56.935][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-09 00:33:56.937][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-09 00:33:56.940][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-09 00:33:56.942][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-09 00:33:56.944][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-09 00:33:56.947][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-09-09 00:33:56.949][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-09 00:33:56.952][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-09-09 00:33:56.954][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-09-09 00:33:56.956][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-09 00:33:56.959][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-09 00:33:56.961][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-09 00:33:56.963][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-09-09 00:33:56.966][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-09 00:33:56.968][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-09 00:33:56.970][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-09 00:33:56.972][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-09 00:33:56.974][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-09 00:33:56.976][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-09 00:33:56.978][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-09 00:33:56.981][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-09 00:33:56.983][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-09 00:33:56.985][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-09 00:33:56.988][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-09 00:33:56.990][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-09 00:33:56.993][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-09-09 00:33:56.997][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-09-09 00:33:56.999][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-09-09 00:33:57.001][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-09 00:33:57.003][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-09 00:33:57.005][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-09 00:33:57.008][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-09 00:33:57.010][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-09 00:33:57.012][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-09 00:33:57.014][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-09-09 00:33:57.017][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-09 00:33:57.028][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-09-09 00:33:57.030][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-09-09 00:33:57.033][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-09 00:33:57.034][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-09 00:33:57.037][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-09 00:33:57.039][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-09-09 00:33:57.041][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-09 00:33:57.043][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-09 00:33:57.045][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-09 00:33:57.047][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-09 00:33:57.049][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-09 00:33:57.050][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-09 00:33:57.052][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-09 00:33:57.054][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-09 00:33:57.056][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-09 00:33:57.058][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-09 00:33:57.061][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-09 00:33:57.063][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-09 00:33:57.066][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-09 00:33:57.068][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:57.070][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:57.072][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:57.074][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:57.076][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:57.078][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:57.080][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.DEBUG[2025-09-09 00:33:57.083][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:57.085][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:57.087][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:57.088][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:57.090][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:57.092][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:57.094][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:57.096][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:57.098][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:57.100][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:57.102][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:57.104][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:57.106][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:57.107][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:57.109][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:57.111][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:57.112][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:57.114][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:57.116][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:57.118][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:57.120][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:57.122][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:57.125][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:57.126][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:57.128][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:57.130][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:57.132][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:57.134][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:57.136][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:57.138][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:57.140][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:57.142][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:57.144][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:57.146][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:57.148][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.DEBUG[2025-09-09 00:33:57.149][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:57.151][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:57.153][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:57.154][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:57.156][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:57.158][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:57.160][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:57.162][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:57.164][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:57.166][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:57.168][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:57.170][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:57.172][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:57.174][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:57.176][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:57.178][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:57.180][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:57.182][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:57.184][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:57.186][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:57.188][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:57.190][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:57.192][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:57.194][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:57.196][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:57.198][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:57.199][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:57.201][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:57.202][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:57.204][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:57.206][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:57.208][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:57.210][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:57.212][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:57.214][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:57.215][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:57.217][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:57.218][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:57.219][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:57.221][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:57.223][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:57.225][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:57.226][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:57.227][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:57.229][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:57.232][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-09-09 00:33:57.235][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-09-09 00:33:57.238][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-09-09 00:33:57.241][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-09-09 00:33:57.244][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-09-09 00:33:57.247][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-09-09 00:33:57.250][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-09-09 00:33:57.253][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-09-09 00:33:57.256][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-09-09 00:33:57.260][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-09-09 00:33:57.263][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-09-09 00:33:57.266][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-09-09 00:33:57.269][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-09-09 00:33:57.272][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-09-09 00:33:57.275][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-09-09 00:33:57.277][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-09-09 00:33:57.280][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-09-09 00:33:57.283][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-09-09 00:33:57.286][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-09-09 00:33:57.288][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-09-09 00:33:57.290][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-09-09 00:33:57.292][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-09-09 00:33:57.294][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-09-09 00:33:57.296][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-09-09 00:33:57.299][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-09-09 00:33:57.302][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-09-09 00:33:57.305][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-09-09 00:33:57.308][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-09-09 00:33:57.311][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-09-09 00:33:57.314][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-09-09 00:33:57.318][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-09-09 00:33:57.320][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-09-09 00:33:57.323][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-09-09 00:33:57.326][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-09-09 00:33:57.330][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-09-09 00:33:57.332][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-09-09 00:33:57.334][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-09-09 00:33:57.337][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-09-09 00:33:57.340][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-09-09 00:33:57.343][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-09-09 00:33:57.346][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-09-09 00:33:57.349][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-09-09 00:33:57.351][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-09-09 00:33:57.354][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-09-09 00:33:57.358][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-09-09 00:33:57.361][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-09-09 00:33:57.365][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-09-09 00:33:57.368][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-09-09 00:33:57.372][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-09-09 00:33:57.375][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-09-09 00:33:57.378][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-09-09 00:33:57.381][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-09-09 00:33:57.385][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-09-09 00:33:57.387][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-09-09 00:33:57.390][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-09-09 00:33:57.393][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-09-09 00:33:57.397][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-09-09 00:33:57.400][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-09-09 00:33:57.403][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-09-09 00:33:57.406][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-09-09 00:33:57.410][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-09-09 00:33:57.413][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-09-09 00:33:57.416][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-09-09 00:33:57.419][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-09-09 00:33:57.422][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-09-09 00:33:57.425][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-09-09 00:33:57.427][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-09-09 00:33:57.431][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-09-09 00:33:57.434][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-09-09 00:33:57.436][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-09-09 00:33:57.439][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-09-09 00:33:57.442][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-09-09 00:33:57.445][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-09-09 00:33:57.448][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-09-09 00:33:57.450][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-09-09 00:33:57.453][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-09-09 00:33:57.456][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-09-09 00:33:57.459][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-09-09 00:33:57.463][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-09-09 00:33:57.466][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-09-09 00:33:57.469][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-09-09 00:33:57.472][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-09-09 00:33:57.476][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-09-09 00:33:57.488][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-09-09 00:33:57.491][initialize] This is biodb version 1.16.0.
biodb.DEBUG[2025-09-09 00:33:57.493][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-09 00:33:57.495][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:57.497][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:57.499][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:57.501][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[2025-09-09 00:33:57.503][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:57.506][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:57.508][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:57.510][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:57.512][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:57.514][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:57.515][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:57.517][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:57.519][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:57.521][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:57.523][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:57.525][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:57.527][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:57.529][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:57.532][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:57.534][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:57.536][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:57.538][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:57.540][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:57.543][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:57.545][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:57.547][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:57.549][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:57.551][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:57.553][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:57.555][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:57.557][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:57.559][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:57.561][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:57.563][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:57.565][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:57.567][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:57.569][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:57.571][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:57.573][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:57.575][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:57.577][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:57.579][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:57.581][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:57.583][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:57.585][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:57.587][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[2025-09-09 00:33:57.589][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:57.590][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:57.592][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:57.594][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:57.596][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:57.598][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:57.600][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:57.602][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:57.604][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:57.606][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:57.608][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:57.610][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:57.612][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:57.614][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:57.616][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:57.618][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:57.619][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:57.621][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:57.623][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:57.625][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:57.627][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:57.629][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:57.631][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:57.633][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:57.635][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:57.637][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:57.639][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:57.641][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:57.643][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:57.645][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:57.646][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:57.648][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:57.650][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:57.652][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:57.653][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:57.654][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:57.656][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:57.658][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:57.660][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:57.662][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:57.664][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:57.666][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:57.667][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:57.669][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:57.671][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:57.673][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:57.675][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:57.677][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:57.680][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:57.682][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:57.684][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:57.686][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:57.688][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:57.690][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:57.692][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:57.694][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.DEBUG[2025-09-09 00:33:57.696][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:57.698][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:57.700][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:57.702][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:57.705][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:57.707][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:57.709][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:57.711][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:57.713][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:57.715][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:57.717][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:57.719][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:57.722][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:57.724][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:57.726][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:57.728][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:57.730][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:57.740][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:57.741][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:57.743][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:57.744][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:57.748][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-09-09 00:33:57.751][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-09-09 00:33:57.753][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-09 00:33:57.755][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-09-09 00:33:57.758][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-09 00:33:57.759][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-09 00:33:57.761][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-09 00:33:57.763][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-09 00:33:57.765][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-09-09 00:33:57.767][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-09-09 00:33:57.769][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-09-09 00:33:57.771][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-09 00:33:57.774][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-09 00:33:57.776][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-09-09 00:33:57.778][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-09 00:33:57.780][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-09-09 00:33:57.780][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-09-09 00:33:57.780][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-09-09 00:33:57.780][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-09-09 00:33:57.780][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-09-09 00:33:57.780][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-09-09 00:33:57.780][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-09-09 00:33:57.780][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-09-09 00:33:57.780][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-09-09 00:33:57.780][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-09-09 00:33:57.780][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-09-09 00:33:57.783][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-09-09 00:33:57.786][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-09 00:33:57.786][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-09 00:33:57.786][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-09 00:33:57.788][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-09-09 00:33:57.790][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-09 00:33:57.792][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-09 00:33:57.793][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-09 00:33:57.795][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-09 00:33:57.796][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-09 00:33:57.798][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-09 00:33:57.800][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-09-09 00:33:57.800][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-09-09 00:33:57.801][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-09 00:33:57.802][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-09 00:33:57.804][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-09-09 00:33:57.806][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-09-09 00:33:57.806][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-09-09 00:33:57.810][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-09-09 00:33:57.813][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-09-09 00:33:57.816][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-09-09 00:33:57.818][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-09-09 00:33:57.821][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-09-09 00:33:57.825][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-09-09 00:33:57.833][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-09-09 00:33:57.835][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2025-09-09 00:33:57.838][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2025-09-09 00:33:57.841][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2025-09-09 00:33:57.844][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-09-09 00:33:57.845][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-09-09 00:33:57.847][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2025-09-09 00:33:57.849][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-09-09 00:33:57.852][biodb::testThat]
biodb.INFO [2025-09-09 00:33:57.854][biodb::testThat] Running test function  test_chebi_convCasToChebi  (" convCasToChebi() works. ").
biodb.INFO [2025-09-09 00:33:57.856][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-09 00:33:57.858][biodb::testThat]
biodb.DEBUG[2025-09-09 00:33:57.866][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2025-09-09 00:33:57.873][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-09-09 00:33:57.876][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2025-09-09 00:33:57.879][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-09-09 00:33:57.882][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2025-09-09 00:33:57.941][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".
biodb.DEBUG[2025-09-09 00:33:57.949][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-09-09 00:33:57.952][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2025-09-09 00:33:57.956][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-09-09 00:33:57.959][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2025-09-09 00:33:57.962][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:57.965][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:57.967][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:57.977][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:57.979][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:57.981][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:57.983][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[2025-09-09 00:33:57.987][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".
biodb.DEBUG[2025-09-09 00:33:57.996][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-09-09 00:33:57.999][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2025-09-09 00:33:58.002][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-09-09 00:33:58.005][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2025-09-09 00:33:58.009][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:58.011][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:58.013][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:58.023][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:58.026][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:58.028][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:58.029][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:58.069][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:58.072][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:58.073][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:58.084][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:58.086][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:58.088][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:58.090][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:58.101][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".
biodb.DEBUG[2025-09-09 00:33:58.108][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-09-09 00:33:58.111][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2025-09-09 00:33:58.115][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-09-09 00:33:58.118][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2025-09-09 00:33:58.122][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:58.124][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:58.126][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:58.138][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:58.140][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:58.142][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:58.144][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:58.148][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".
biodb.DEBUG[2025-09-09 00:33:58.156][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-09-09 00:33:58.159][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2025-09-09 00:33:58.162][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-09-09 00:33:58.166][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2025-09-09 00:33:58.169][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:58.171][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:58.173][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:58.184][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:58.187][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:58.189][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:58.190][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:58.192][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:58.193][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:58.195][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:58.206][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:58.208][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:58.211][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:58.213][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:58.221][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".
biodb.DEBUG[2025-09-09 00:33:58.229][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-09-09 00:33:58.232][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2025-09-09 00:33:58.235][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-09-09 00:33:58.237][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2025-09-09 00:33:58.239][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:58.242][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:58.244][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:58.256][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:58.258][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:58.261][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:58.262][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:58.266][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".
biodb.DEBUG[2025-09-09 00:33:58.274][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-09-09 00:33:58.277][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2025-09-09 00:33:58.280][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-09-09 00:33:58.284][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2025-09-09 00:33:58.287][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:58.290][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:58.292][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:58.302][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:58.305][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:58.307][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:58.310][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:58.314][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".
biodb.DEBUG[2025-09-09 00:33:58.321][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-09-09 00:33:58.325][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70e3912746e7e39b39fbbffe6c90b502".
biodb.TRACE[2025-09-09 00:33:58.328][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-09-09 00:33:58.330][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70e3912746e7e39b39fbbffe6c90b502.content".
biodb.DEBUG[2025-09-09 00:33:58.334][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:58.336][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:58.337][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:58.347][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:58.349][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:58.351][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:58.353][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.INFO [2025-09-09 00:33:58.367][biodb::testThat]
biodb.INFO [2025-09-09 00:33:58.368][biodb::testThat] Running test function  test_chebi_convInchiToChebi  (" convInchiToChebi() works. ").
biodb.INFO [2025-09-09 00:33:58.369][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-09 00:33:58.371][biodb::testThat]
biodb.DEBUG[2025-09-09 00:33:58.377][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".
biodb.DEBUG[2025-09-09 00:33:58.385][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-09-09 00:33:58.387][cch$loadFileContent] Trying to load 1 files from cache: [1]: "64007787a4f3864bb479683766386808".
biodb.TRACE[2025-09-09 00:33:58.390][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-09-09 00:33:58.394][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/64007787a4f3864bb479683766386808.content".
biodb.DEBUG[2025-09-09 00:33:58.397][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:58.400][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:58.402][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:58.413][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:58.415][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:58.416][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:58.418][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:58.426][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".
biodb.DEBUG[2025-09-09 00:33:58.434][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-09-09 00:33:58.437][cch$loadFileContent] Trying to load 1 files from cache: [1]: "7547b08b3ebd50447d61026ab0af8d63".
biodb.TRACE[2025-09-09 00:33:58.440][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-09-09 00:33:58.443][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7547b08b3ebd50447d61026ab0af8d63.content".
biodb.DEBUG[2025-09-09 00:33:58.447][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:33:58.449][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:58.450][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:58.459][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:58.461][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:58.463][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:58.464][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-09-09 00:33:58.475][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-09-09 00:33:58.478][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2025-09-09 00:33:58.480][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-09-09 00:33:58.482][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-09-09 00:33:58.483][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:58.484][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:58.486][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:58.488][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:58.489][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:58.490][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.INFO [2025-09-09 00:33:58.495][biodb::testContext]
biodb.INFO [2025-09-09 00:33:58.497][biodb::testContext] ********************************************************************************
biodb.INFO [2025-09-09 00:33:58.499][biodb::testContext] Test context - Test web services
biodb.INFO [2025-09-09 00:33:58.501][biodb::testContext] ********************************************************************************
biodb.INFO [2025-09-09 00:33:58.503][biodb::testContext]
biodb.INFO [2025-09-09 00:33:58.517][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.16.0.
biodb.DEBUG[2025-09-09 00:33:58.520][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-09-09 00:33:58.529][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-09 00:33:58.530][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-09-09 00:33:58.532][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-09-09 00:33:58.534][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:58.536][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:58.538][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:58.540][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-09-09 00:33:58.542][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-09-09 00:33:58.544][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:58.546][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:58.548][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:58.549][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-09-09 00:33:58.551][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-09-09 00:33:58.552][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:58.553][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:58.554][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:58.555][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-09-09 00:33:58.557][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-09-09 00:33:58.558][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-09-09 00:33:58.560][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:58.562][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:58.563][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:58.566][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-09-09 00:33:58.568][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-09-09 00:33:58.570][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-09-09 00:33:58.572][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:58.574][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:58.576][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:58.579][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-09-09 00:33:58.581][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-09-09 00:33:58.583][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:58.585][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:58.587][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[2025-09-09 00:33:58.589][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-09-09 00:33:58.592][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-09-09 00:33:58.594][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-09-09 00:33:58.595][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:58.597][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:58.598][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:58.600][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-09-09 00:33:58.602][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-09-09 00:33:58.604][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:58.605][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:58.607][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:58.609][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-09-09 00:33:58.611][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-09-09 00:33:58.613][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-09-09 00:33:58.615][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:58.617][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:58.619][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:58.621][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-09-09 00:33:58.624][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-09-09 00:33:58.626][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-09-09 00:33:58.628][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-09-09 00:33:58.629][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-09-09 00:33:58.632][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-09-09 00:33:58.634][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:58.636][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:58.637][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[2025-09-09 00:33:58.639][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-09-09 00:33:58.641][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-09-09 00:33:58.643][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:58.645][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:58.648][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:58.650][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-09-09 00:33:58.652][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-09-09 00:33:58.654][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:58.656][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:58.658][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:58.659][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-09-09 00:33:58.661][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-09-09 00:33:58.663][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:58.664][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:58.665][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:58.667][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-09-09 00:33:58.670][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-09-09 00:33:58.672][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:58.674][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:58.676][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:58.677][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-09-09 00:33:58.678][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-09-09 00:33:58.680][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:58.682][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:58.683][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:58.685][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-09-09 00:33:58.687][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-09-09 00:33:58.702][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-09-09 00:33:58.703][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:58.704][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:58.705][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:58.707][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-09-09 00:33:58.710][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-09-09 00:33:58.712][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-09-09 00:33:58.714][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:58.716][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:58.718][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:58.720][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-09-09 00:33:58.724][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-09 00:33:58.725][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-09-09 00:33:58.727][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-09 00:33:58.729][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-09 00:33:58.732][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-09 00:33:58.734][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-09 00:33:58.736][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-09 00:33:58.738][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-09 00:33:58.741][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-09-09 00:33:58.743][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-09 00:33:58.745][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-09 00:33:58.747][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-09-09 00:33:58.750][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-09 00:33:58.752][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-09 00:33:58.754][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-09 00:33:58.756][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-09 00:33:58.756][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-09 00:33:58.756][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-09 00:33:58.756][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-09-09 00:33:58.756][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-09-09 00:33:58.759][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-09 00:33:58.761][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-09 00:33:58.763][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-09 00:33:58.765][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-09 00:33:58.767][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-09 00:33:58.769][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-09 00:33:58.770][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-09 00:33:58.772][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-09 00:33:58.774][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-09 00:33:58.776][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-09 00:33:58.778][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-09 00:33:58.780][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-09 00:33:58.783][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-09-09 00:33:58.785][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-09 00:33:58.787][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-09-09 00:33:58.789][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-09 00:33:58.791][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-09 00:33:58.793][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-09 00:33:58.796][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-09 00:33:58.798][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-09 00:33:58.800][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-09 00:33:58.802][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-09-09 00:33:58.805][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-09 00:33:58.807][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-09 00:33:58.810][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-09-09 00:33:58.812][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-09 00:33:58.814][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-09 00:33:58.817][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-09 00:33:58.819][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-09 00:33:58.819][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-09 00:33:58.819][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-09 00:33:58.819][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-09-09 00:33:58.819][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-09-09 00:33:58.821][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-09 00:33:58.823][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-09 00:33:58.825][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-09 00:33:58.827][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-09 00:33:58.829][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-09 00:33:58.830][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-09 00:33:58.833][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-09 00:33:58.835][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-09 00:33:58.837][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-09 00:33:58.838][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-09 00:33:58.840][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-09 00:33:58.843][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-09 00:33:58.846][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-09-09 00:33:58.849][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-09-09 00:33:58.851][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-09-09 00:33:58.853][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-09 00:33:58.854][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-09 00:33:58.856][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-09 00:33:58.858][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-09 00:33:58.861][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-09 00:33:58.863][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-09 00:33:58.865][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-09-09 00:33:58.867][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-09 00:33:58.870][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-09-09 00:33:58.872][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-09-09 00:33:58.875][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-09 00:33:58.877][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-09 00:33:58.879][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-09 00:33:58.882][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-09-09 00:33:58.884][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-09 00:33:58.886][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-09 00:33:58.888][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-09 00:33:58.890][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-09 00:33:58.893][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-09 00:33:58.895][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-09 00:33:58.897][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-09 00:33:58.900][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-09 00:33:58.902][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-09 00:33:58.904][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-09 00:33:58.907][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-09 00:33:58.909][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-09 00:33:58.912][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-09-09 00:33:58.916][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-09-09 00:33:58.919][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-09-09 00:33:58.921][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-09 00:33:58.923][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-09 00:33:58.925][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-09 00:33:58.926][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-09 00:33:58.929][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-09 00:33:58.931][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-09 00:33:58.933][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-09-09 00:33:58.936][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-09 00:33:58.937][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-09-09 00:33:58.939][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-09-09 00:33:58.940][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-09 00:33:58.942][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-09 00:33:58.945][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-09 00:33:58.947][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-09-09 00:33:58.950][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-09 00:33:58.952][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-09 00:33:58.954][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-09 00:33:58.956][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-09 00:33:58.958][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-09 00:33:58.959][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-09 00:33:58.961][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-09 00:33:58.964][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-09 00:33:58.966][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-09 00:33:58.968][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-09 00:33:58.971][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-09 00:33:58.974][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-09 00:33:58.977][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-09 00:33:58.980][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:58.982][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:58.984][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:58.985][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:58.986][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:58.988][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:58.989][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:58.991][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:58.994][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:58.996][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:58.998][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:59.000][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:59.002][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:59.004][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:59.006][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:59.007][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:59.009][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:59.011][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:59.013][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:59.015][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:59.017][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:59.019][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.DEBUG[2025-09-09 00:33:59.021][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:59.023][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:59.025][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:59.027][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:59.029][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:59.031][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:59.033][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:59.035][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:59.037][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:59.039][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:59.041][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:59.043][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:59.045][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:59.048][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:59.050][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:59.052][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:59.054][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:59.056][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:59.057][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:59.059][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:59.060][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:59.062][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:59.064][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:59.066][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:59.068][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:59.070][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:59.072][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:59.074][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:59.076][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:59.079][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:59.081][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:59.082][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:59.084][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:59.086][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:59.088][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:59.090][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:59.091][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:59.093][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:59.094][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:59.096][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:59.098][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:59.099][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:59.101][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:59.103][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:59.105][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:59.107][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:59.109][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:59.111][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:59.113][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:59.115][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:59.116][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:59.117][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:59.118][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:59.119][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:59.122][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:59.123][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:59.125][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:59.127][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:59.129][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:59.132][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:59.133][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:59.136][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:59.139][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:59.141][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:59.143][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.DEBUG[2025-09-09 00:33:59.146][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-09-09 00:33:59.149][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-09-09 00:33:59.153][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-09-09 00:33:59.155][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-09-09 00:33:59.158][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-09-09 00:33:59.161][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-09-09 00:33:59.163][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-09-09 00:33:59.166][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-09-09 00:33:59.168][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-09-09 00:33:59.172][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-09-09 00:33:59.175][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-09-09 00:33:59.178][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-09-09 00:33:59.181][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-09-09 00:33:59.185][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-09-09 00:33:59.188][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-09-09 00:33:59.192][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-09-09 00:33:59.195][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-09-09 00:33:59.199][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-09-09 00:33:59.202][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-09-09 00:33:59.205][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-09-09 00:33:59.209][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-09-09 00:33:59.212][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-09-09 00:33:59.215][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-09-09 00:33:59.219][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-09-09 00:33:59.222][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-09-09 00:33:59.234][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-09-09 00:33:59.237][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-09-09 00:33:59.241][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-09-09 00:33:59.244][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-09-09 00:33:59.246][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-09-09 00:33:59.249][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-09-09 00:33:59.252][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-09-09 00:33:59.256][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-09-09 00:33:59.259][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-09-09 00:33:59.263][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-09-09 00:33:59.266][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-09-09 00:33:59.270][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-09-09 00:33:59.274][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-09-09 00:33:59.277][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-09-09 00:33:59.281][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-09-09 00:33:59.284][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-09-09 00:33:59.288][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-09-09 00:33:59.292][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-09-09 00:33:59.295][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-09-09 00:33:59.299][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-09-09 00:33:59.303][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-09-09 00:33:59.306][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-09-09 00:33:59.310][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-09-09 00:33:59.313][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-09-09 00:33:59.316][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-09-09 00:33:59.319][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-09-09 00:33:59.322][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-09-09 00:33:59.326][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-09-09 00:33:59.328][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-09-09 00:33:59.331][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-09-09 00:33:59.335][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-09-09 00:33:59.337][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-09-09 00:33:59.339][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-09-09 00:33:59.341][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-09-09 00:33:59.342][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-09-09 00:33:59.344][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-09-09 00:33:59.346][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-09-09 00:33:59.348][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-09-09 00:33:59.350][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-09-09 00:33:59.352][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-09-09 00:33:59.353][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-09-09 00:33:59.355][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-09-09 00:33:59.357][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-09-09 00:33:59.359][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-09-09 00:33:59.361][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-09-09 00:33:59.362][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-09-09 00:33:59.364][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-09-09 00:33:59.366][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-09-09 00:33:59.368][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-09-09 00:33:59.370][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-09-09 00:33:59.373][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-09-09 00:33:59.376][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-09-09 00:33:59.379][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-09-09 00:33:59.382][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-09-09 00:33:59.386][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-09-09 00:33:59.389][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-09-09 00:33:59.392][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-09-09 00:33:59.396][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-09-09 00:33:59.399][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-09-09 00:33:59.403][initialize] This is biodb version 1.16.0.
biodb.DEBUG[2025-09-09 00:33:59.406][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-09 00:33:59.408][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:59.410][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:59.412][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:59.414][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:59.416][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:59.419][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:59.421][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:59.423][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:59.425][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:59.427][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:59.430][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[2025-09-09 00:33:59.432][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:59.434][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:59.436][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:59.439][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:59.441][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:59.443][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:59.445][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:59.447][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:59.450][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:59.452][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:59.454][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:59.456][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:59.458][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:59.460][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:59.462][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:59.463][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:59.465][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:59.467][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:59.469][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:59.471][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:59.472][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:59.474][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:59.476][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:59.478][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:59.480][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:59.482][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:59.484][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:59.486][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[2025-09-09 00:33:59.488][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:59.489][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:59.491][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:59.493][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:59.495][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:59.497][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:59.499][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:59.501][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:59.503][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:59.505][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:59.507][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:59.509][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:59.510][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:59.512][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:59.513][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:59.514][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:59.515][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:59.517][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:59.519][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:59.520][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:59.522][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:59.524][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:59.526][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:59.528][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:59.530][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:59.532][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:59.534][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:59.536][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:59.538][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:59.540][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:59.542][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:59.544][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:59.546][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:59.548][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:59.550][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:59.552][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:59.553][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:59.555][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:59.557][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:59.560][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:59.562][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:59.564][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:59.566][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:59.567][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:59.569][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:59.571][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:59.572][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:59.574][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:59.576][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:59.578][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:59.580][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:59.582][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:59.584][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:59.586][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:59.588][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:59.590][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:59.592][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:59.594][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:59.595][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:59.598][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:59.600][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:59.602][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:59.604][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:59.606][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:59.609][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:59.611][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:59.612][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:59.615][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:59.617][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:59.619][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:59.621][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:59.623][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:59.625][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:59.627][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:59.629][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:59.631][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:59.633][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[2025-09-09 00:33:59.635][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:59.637][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:59.639][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:59.641][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:59.643][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:59.646][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:59.648][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:59.652][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-09-09 00:33:59.655][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-09-09 00:33:59.660][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-09 00:33:59.662][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-09-09 00:33:59.665][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-09 00:33:59.667][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-09 00:33:59.669][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-09 00:33:59.672][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-09 00:33:59.675][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-09-09 00:33:59.677][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-09-09 00:33:59.679][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-09-09 00:33:59.682][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-09 00:33:59.684][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-09 00:33:59.686][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-09-09 00:33:59.689][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-09 00:33:59.691][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-09-09 00:33:59.691][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-09-09 00:33:59.691][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-09-09 00:33:59.691][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-09-09 00:33:59.691][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-09-09 00:33:59.691][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-09-09 00:33:59.691][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-09-09 00:33:59.691][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-09-09 00:33:59.691][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-09-09 00:33:59.691][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-09-09 00:33:59.691][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-09-09 00:33:59.694][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-09-09 00:33:59.697][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-09 00:33:59.697][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-09 00:33:59.697][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-09 00:33:59.700][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-09-09 00:33:59.702][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-09 00:33:59.704][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-09 00:33:59.707][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-09 00:33:59.709][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-09 00:33:59.711][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-09 00:33:59.713][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-09 00:33:59.716][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-09-09 00:33:59.716][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-09-09 00:33:59.719][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-09 00:33:59.721][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-09 00:33:59.724][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-09-09 00:33:59.728][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-09-09 00:33:59.728][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-09-09 00:33:59.732][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-09-09 00:33:59.736][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-09-09 00:33:59.742][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-09-09 00:33:59.746][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-09-09 00:33:59.751][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-09-09 00:33:59.756][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-09-09 00:33:59.764][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-09-09 00:33:59.767][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2025-09-09 00:33:59.770][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2025-09-09 00:33:59.776][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2025-09-09 00:33:59.779][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-09-09 00:33:59.781][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-09-09 00:33:59.785][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2025-09-09 00:33:59.788][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-09-09 00:33:59.792][biodb::testThat]
biodb.INFO [2025-09-09 00:33:59.794][biodb::testThat] Running test function  test.chebi.wsGetLiteEntity  (" Web service getLiteEntity works fine. ").
biodb.INFO [2025-09-09 00:33:59.797][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-09 00:33:59.799][biodb::testThat]
biodb.DEBUG[2025-09-09 00:33:59.807][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2025-09-09 00:33:59.816][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-09-09 00:33:59.819][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2025-09-09 00:33:59.822][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-09-09 00:33:59.826][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2025-09-09 00:33:59.833][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".
biodb.DEBUG[2025-09-09 00:33:59.842][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-09-09 00:33:59.846][cch$loadFileContent] Trying to load 1 files from cache: [1]: "04c26672f8368e71348af4b34238160e".
biodb.TRACE[2025-09-09 00:33:59.849][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-09-09 00:33:59.852][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.content".
biodb.INFO [2025-09-09 00:33:59.870][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-09-09 00:33:59.873][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2025-09-09 00:33:59.875][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-09-09 00:33:59.876][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-09-09 00:33:59.878][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:33:59.879][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:33:59.881][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:33:59.883][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:33:59.885][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:59.887][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-09-09 00:33:59.894][biodb::testContext]
biodb.INFO [2025-09-09 00:33:59.896][biodb::testContext] ********************************************************************************
biodb.INFO [2025-09-09 00:33:59.898][biodb::testContext] Test context - Non regression tests
biodb.INFO [2025-09-09 00:33:59.900][biodb::testContext] ********************************************************************************
biodb.INFO [2025-09-09 00:33:59.902][biodb::testContext]
biodb.INFO [2025-09-09 00:33:59.905][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.16.0.
biodb.DEBUG[2025-09-09 00:33:59.907][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-09-09 00:33:59.914][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-09 00:33:59.915][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-09-09 00:33:59.917][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-09-09 00:33:59.918][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:59.919][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:59.920][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:59.922][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-09-09 00:33:59.924][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-09-09 00:33:59.927][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:59.929][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:59.930][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[2025-09-09 00:33:59.933][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-09-09 00:33:59.935][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-09-09 00:33:59.937][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:59.938][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:59.940][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:59.941][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-09-09 00:33:59.942][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-09-09 00:33:59.944][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-09-09 00:33:59.945][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:59.946][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:59.948][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.DEBUG[2025-09-09 00:33:59.950][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-09-09 00:33:59.952][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-09-09 00:33:59.955][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-09-09 00:33:59.957][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:59.959][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:59.961][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:59.963][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-09-09 00:33:59.965][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-09-09 00:33:59.967][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:59.969][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:59.971][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:59.982][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-09-09 00:33:59.984][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-09-09 00:33:59.986][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-09-09 00:33:59.988][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:59.990][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:33:59.992][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:33:59.994][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-09-09 00:33:59.996][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-09-09 00:33:59.997][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:33:59.999][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:34:00.001][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[2025-09-09 00:34:00.003][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-09-09 00:34:00.006][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-09-09 00:34:00.008][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-09-09 00:34:00.010][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:34:00.011][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:34:00.013][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:34:00.015][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-09-09 00:34:00.018][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-09-09 00:34:00.020][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-09-09 00:34:00.022][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-09-09 00:34:00.024][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-09-09 00:34:00.026][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-09-09 00:34:00.027][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:34:00.029][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:34:00.030][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:34:00.033][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-09-09 00:34:00.034][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-09-09 00:34:00.036][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:34:00.038][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:34:00.040][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:34:00.041][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-09-09 00:34:00.043][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-09-09 00:34:00.044][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:34:00.046][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:34:00.048][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:34:00.050][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-09-09 00:34:00.052][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-09-09 00:34:00.054][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:34:00.055][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:34:00.057][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:34:00.058][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-09-09 00:34:00.059][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-09-09 00:34:00.060][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:34:00.061][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:34:00.063][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:34:00.064][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-09-09 00:34:00.065][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-09-09 00:34:00.066][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:34:00.068][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:34:00.069][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:34:00.070][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-09-09 00:34:00.073][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-09-09 00:34:00.089][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-09-09 00:34:00.090][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:34:00.092][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:34:00.094][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.DEBUG[2025-09-09 00:34:00.096][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-09-09 00:34:00.098][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-09-09 00:34:00.100][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-09-09 00:34:00.102][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:34:00.104][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:34:00.106][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:34:00.109][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-09-09 00:34:00.113][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-09 00:34:00.116][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-09-09 00:34:00.118][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-09 00:34:00.120][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-09 00:34:00.122][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-09 00:34:00.125][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-09 00:34:00.127][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-09 00:34:00.129][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-09 00:34:00.130][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-09-09 00:34:00.132][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-09 00:34:00.133][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-09 00:34:00.135][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-09-09 00:34:00.137][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-09 00:34:00.138][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-09 00:34:00.140][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-09 00:34:00.142][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-09 00:34:00.142][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-09 00:34:00.142][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-09 00:34:00.142][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-09-09 00:34:00.142][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-09-09 00:34:00.143][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-09 00:34:00.145][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-09 00:34:00.146][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-09 00:34:00.149][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-09 00:34:00.151][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-09 00:34:00.152][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-09 00:34:00.155][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-09 00:34:00.157][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-09 00:34:00.158][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-09 00:34:00.160][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-09 00:34:00.162][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-09 00:34:00.163][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-09 00:34:00.165][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-09-09 00:34:00.169][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-09 00:34:00.172][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-09-09 00:34:00.174][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-09 00:34:00.176][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-09 00:34:00.178][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-09 00:34:00.180][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-09 00:34:00.182][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-09 00:34:00.184][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-09 00:34:00.185][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-09-09 00:34:00.187][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-09 00:34:00.189][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-09 00:34:00.191][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-09-09 00:34:00.193][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-09 00:34:00.195][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-09 00:34:00.197][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-09 00:34:00.199][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-09 00:34:00.199][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-09 00:34:00.199][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-09 00:34:00.199][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-09-09 00:34:00.199][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-09-09 00:34:00.202][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-09 00:34:00.204][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-09 00:34:00.206][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-09 00:34:00.208][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-09 00:34:00.210][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-09 00:34:00.212][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-09 00:34:00.214][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-09 00:34:00.216][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-09 00:34:00.218][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-09 00:34:00.219][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-09 00:34:00.221][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-09 00:34:00.223][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-09 00:34:00.226][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-09-09 00:34:00.230][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-09-09 00:34:00.232][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-09-09 00:34:00.233][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-09 00:34:00.235][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-09 00:34:00.237][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-09 00:34:00.240][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-09 00:34:00.241][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-09 00:34:00.243][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-09 00:34:00.244][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-09-09 00:34:00.246][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-09 00:34:00.248][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-09-09 00:34:00.250][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-09-09 00:34:00.252][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-09 00:34:00.255][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-09 00:34:00.257][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-09 00:34:00.260][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-09-09 00:34:00.262][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-09 00:34:00.264][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-09 00:34:00.266][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-09 00:34:00.268][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-09 00:34:00.270][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-09 00:34:00.272][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-09 00:34:00.274][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-09 00:34:00.276][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-09 00:34:00.277][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-09 00:34:00.279][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-09 00:34:00.281][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-09 00:34:00.282][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-09 00:34:00.284][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-09-09 00:34:00.286][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-09-09 00:34:00.287][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-09-09 00:34:00.289][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-09 00:34:00.290][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-09 00:34:00.291][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-09 00:34:00.293][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-09 00:34:00.294][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-09 00:34:00.295][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-09 00:34:00.297][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-09-09 00:34:00.298][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-09 00:34:00.301][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-09-09 00:34:00.303][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-09-09 00:34:00.305][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-09 00:34:00.308][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-09 00:34:00.310][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-09 00:34:00.312][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-09-09 00:34:00.315][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-09 00:34:00.317][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-09 00:34:00.318][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-09 00:34:00.320][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-09 00:34:00.322][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-09 00:34:00.324][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-09 00:34:00.327][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-09 00:34:00.330][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-09 00:34:00.332][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-09 00:34:00.334][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-09 00:34:00.337][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-09 00:34:00.339][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-09 00:34:00.342][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-09 00:34:00.344][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:34:00.346][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.DEBUG[2025-09-09 00:34:00.348][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:34:00.350][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:34:00.353][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:34:00.355][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:34:00.357][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:34:00.359][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:34:00.361][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:34:00.363][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:34:00.365][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:34:00.367][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[2025-09-09 00:34:00.369][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:34:00.372][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:34:00.374][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:34:00.376][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:34:00.380][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:34:00.383][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:34:00.385][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:34:00.387][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:34:00.390][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:34:00.392][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:34:00.394][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:34:00.396][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:34:00.399][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:34:00.401][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:34:00.404][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:34:00.407][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:34:00.409][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:34:00.411][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:34:00.413][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:34:00.415][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:34:00.418][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:34:00.419][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:34:00.422][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:34:00.424][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:34:00.426][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:34:00.428][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:34:00.431][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:34:00.433][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:34:00.435][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:34:00.437][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:34:00.439][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:34:00.441][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:34:00.443][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:34:00.445][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:34:00.447][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:34:00.449][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:34:00.451][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:34:00.453][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:34:00.455][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:34:00.456][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:34:00.458][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:34:00.460][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:34:00.462][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:34:00.464][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:34:00.466][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:34:00.468][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:34:00.470][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:34:00.471][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:34:00.473][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:34:00.474][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:34:00.475][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:34:00.476][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:34:00.477][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:34:00.479][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:34:00.480][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:34:00.481][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:34:00.482][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:34:00.483][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:34:00.485][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:34:00.486][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[2025-09-09 00:34:00.487][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:34:00.488][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:34:00.489][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:34:00.491][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:34:00.492][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[2025-09-09 00:34:00.493][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:34:00.494][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:34:00.495][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:34:00.497][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:34:00.499][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:34:00.501][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:34:00.502][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:34:00.503][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:34:00.504][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:34:00.505][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[2025-09-09 00:34:00.507][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-09-09 00:34:00.510][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-09-09 00:34:00.512][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-09-09 00:34:00.514][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-09-09 00:34:00.516][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-09-09 00:34:00.519][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-09-09 00:34:00.521][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-09-09 00:34:00.525][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-09-09 00:34:00.528][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-09-09 00:34:00.531][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-09-09 00:34:00.533][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-09-09 00:34:00.536][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-09-09 00:34:00.539][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-09-09 00:34:00.542][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-09-09 00:34:00.545][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-09-09 00:34:00.549][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-09-09 00:34:00.551][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-09-09 00:34:00.554][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-09-09 00:34:00.556][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-09-09 00:34:00.558][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-09-09 00:34:00.560][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-09-09 00:34:00.564][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-09-09 00:34:00.567][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-09-09 00:34:00.570][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-09-09 00:34:00.572][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-09-09 00:34:00.574][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-09-09 00:34:00.578][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-09-09 00:34:00.581][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-09-09 00:34:00.584][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-09-09 00:34:00.588][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-09-09 00:34:00.591][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-09-09 00:34:00.594][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-09-09 00:34:00.597][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-09-09 00:34:00.601][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-09-09 00:34:00.603][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-09-09 00:34:00.606][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-09-09 00:34:00.609][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-09-09 00:34:00.612][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-09-09 00:34:00.615][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-09-09 00:34:00.616][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-09-09 00:34:00.619][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-09-09 00:34:00.622][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-09-09 00:34:00.625][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-09-09 00:34:00.628][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-09-09 00:34:00.630][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-09-09 00:34:00.633][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-09-09 00:34:00.636][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-09-09 00:34:00.640][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-09-09 00:34:00.649][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-09-09 00:34:00.652][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-09-09 00:34:00.656][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-09-09 00:34:00.658][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-09-09 00:34:00.660][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-09-09 00:34:00.663][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-09-09 00:34:00.665][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-09-09 00:34:00.668][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-09-09 00:34:00.672][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-09-09 00:34:00.675][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-09-09 00:34:00.678][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-09-09 00:34:00.682][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-09-09 00:34:00.685][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-09-09 00:34:00.686][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-09-09 00:34:00.688][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-09-09 00:34:00.690][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-09-09 00:34:00.692][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-09-09 00:34:00.695][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-09-09 00:34:00.698][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-09-09 00:34:00.702][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-09-09 00:34:00.705][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-09-09 00:34:00.708][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-09-09 00:34:00.711][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-09-09 00:34:00.714][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-09-09 00:34:00.716][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-09-09 00:34:00.718][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-09-09 00:34:00.722][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-09-09 00:34:00.724][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-09-09 00:34:00.726][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-09-09 00:34:00.729][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-09-09 00:34:00.732][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-09-09 00:34:00.735][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-09-09 00:34:00.739][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-09-09 00:34:00.741][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-09-09 00:34:00.744][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-09-09 00:34:00.747][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-09-09 00:34:00.751][initialize] This is biodb version 1.16.0.
biodb.DEBUG[2025-09-09 00:34:00.753][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-09 00:34:00.755][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:34:00.757][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:34:00.759][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:34:00.760][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[2025-09-09 00:34:00.762][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:34:00.764][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:34:00.766][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:34:00.768][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:34:00.770][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:34:00.771][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:34:00.773][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:34:00.774][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:34:00.776][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:34:00.778][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:34:00.780][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:34:00.782][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:34:00.784][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:34:00.786][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:34:00.787][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:34:00.789][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:34:00.790][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:34:00.792][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:34:00.793][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:34:00.795][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:34:00.796][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:34:00.798][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:34:00.800][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:34:00.802][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:34:00.804][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:34:00.827][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:34:00.830][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:34:00.832][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:34:00.834][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:34:00.836][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:34:00.838][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:34:00.840][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:34:00.842][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:34:00.844][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:34:00.845][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:34:00.848][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:34:00.850][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:34:00.852][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:34:00.854][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:34:00.856][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:34:00.858][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:34:00.860][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[2025-09-09 00:34:00.863][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:34:00.865][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:34:00.867][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:34:00.869][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:34:00.872][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:34:00.874][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:34:00.876][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[2025-09-09 00:34:00.878][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:34:00.880][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:34:00.882][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:34:00.884][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:34:00.886][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:34:00.888][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:34:00.890][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:34:00.892][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:34:00.894][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:34:00.896][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:34:00.898][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:34:00.900][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:34:00.902][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:34:00.904][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:34:00.906][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:34:00.909][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:34:00.911][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:34:00.913][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:34:00.915][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:34:00.917][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:34:00.918][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:34:00.922][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:34:00.924][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:34:00.926][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:34:00.928][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:34:00.930][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:34:00.932][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:34:00.935][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:34:00.937][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:34:00.938][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:34:00.940][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:34:00.941][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:34:00.944][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:34:00.946][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:34:00.948][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.DEBUG[2025-09-09 00:34:00.950][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:34:00.952][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:34:00.954][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:34:00.956][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:34:00.958][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:34:00.960][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:34:00.962][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:34:00.964][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:34:00.965][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:34:00.968][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:34:00.970][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:34:00.971][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:34:00.973][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:34:00.975][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[2025-09-09 00:34:00.977][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:34:00.979][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:34:00.981][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:34:00.982][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:34:00.984][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:34:00.985][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:34:00.987][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:34:00.989][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:34:00.991][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:34:00.993][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:34:00.995][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:34:00.997][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:34:00.999][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:34:01.001][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[2025-09-09 00:34:01.003][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-09 00:34:01.005][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:34:01.006][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:34:01.008][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:34:01.010][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:34:01.012][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:34:01.014][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-09 00:34:01.018][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-09-09 00:34:01.021][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-09-09 00:34:01.026][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-09 00:34:01.028][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-09-09 00:34:01.030][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-09 00:34:01.033][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-09 00:34:01.035][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-09 00:34:01.037][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-09 00:34:01.039][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-09-09 00:34:01.041][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-09-09 00:34:01.043][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-09-09 00:34:01.045][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-09 00:34:01.048][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-09 00:34:01.050][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-09-09 00:34:01.052][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-09 00:34:01.054][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-09-09 00:34:01.054][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-09-09 00:34:01.054][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-09-09 00:34:01.054][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-09-09 00:34:01.054][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-09-09 00:34:01.054][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-09-09 00:34:01.054][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-09-09 00:34:01.054][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-09-09 00:34:01.054][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-09-09 00:34:01.054][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-09-09 00:34:01.054][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-09-09 00:34:01.057][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-09-09 00:34:01.059][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-09 00:34:01.059][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-09 00:34:01.059][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-09 00:34:01.061][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-09-09 00:34:01.063][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-09 00:34:01.065][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-09 00:34:01.067][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-09 00:34:01.069][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-09 00:34:01.071][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-09 00:34:01.073][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-09 00:34:01.075][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-09-09 00:34:01.075][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-09-09 00:34:01.077][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-09 00:34:01.079][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-09 00:34:01.081][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-09-09 00:34:01.083][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-09-09 00:34:01.083][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-09-09 00:34:01.086][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-09-09 00:34:01.088][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-09-09 00:34:01.091][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-09-09 00:34:01.094][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-09-09 00:34:01.097][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-09-09 00:34:01.101][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-09-09 00:34:01.108][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-09-09 00:34:01.111][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2025-09-09 00:34:01.113][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2025-09-09 00:34:01.117][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2025-09-09 00:34:01.119][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-09-09 00:34:01.121][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-09-09 00:34:01.124][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2025-09-09 00:34:01.126][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-09-09 00:34:01.129][biodb::testThat]
biodb.INFO [2025-09-09 00:34:01.131][biodb::testThat] Running test function  test.chebi.encoding.issue.in.xml  (" ChEBI encoding issue in XML is handled. ").
biodb.INFO [2025-09-09 00:34:01.134][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-09 00:34:01.136][biodb::testThat]
biodb.DEBUG[2025-09-09 00:34:01.141][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2025-09-09 00:34:01.148][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-09-09 00:34:01.151][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2025-09-09 00:34:01.153][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-09-09 00:34:01.156][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2025-09-09 00:34:01.163][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".
biodb.DEBUG[2025-09-09 00:34:01.170][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-09-09 00:34:01.173][cch$loadFileContent] Trying to load 1 files from cache: [1]: "04c26672f8368e71348af4b34238160e".
biodb.TRACE[2025-09-09 00:34:01.176][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-09-09 00:34:01.180][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.content".
biodb.DEBUG[2025-09-09 00:34:01.188][private$loadEntries] Creating entries from ids [1]: "2571".
biodb.DEBUG[2025-09-09 00:34:01.189][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-09-09 00:34:01.192][cch$loadFileContent] Trying to load 1 files from cache: [1]: "2571".
biodb.TRACE[2025-09-09 00:34:01.194][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-09-09 00:34:01.197][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2571.xml".
biodb.DEBUG[2025-09-09 00:34:01.199][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-09 00:34:01.202][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-09 00:34:01.205][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-09 00:34:01.209][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-09 00:34:01.211][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:34:01.213][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:34:01.223][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:34:01.225][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:34:01.227][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:34:01.229][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-09 00:34:01.238][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:34:01.241][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:34:01.243][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:34:01.245][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:34:01.247][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:34:01.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:34:01.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:34:01.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:34:01.256][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-09 00:34:01.257][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-09 00:34:01.259][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:34:01.261][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:34:01.264][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-09 00:34:01.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-09 00:34:01.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:34:01.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:34:01.273][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-09 00:34:01.276][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-09 00:34:01.278][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:34:01.280][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:34:01.283][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-09 00:34:01.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-09 00:34:01.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:34:01.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:34:01.291][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-09 00:34:01.293][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-09 00:34:01.295][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:34:01.297][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:34:01.300][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-09 00:34:01.302][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-09 00:34:01.304][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:34:01.306][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:34:01.309][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-09 00:34:01.312][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-09 00:34:01.314][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:34:01.316][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:34:01.319][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-09 00:34:01.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-09 00:34:01.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:34:01.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:34:01.327][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-09 00:34:01.330][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:34:01.332][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:34:01.334][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:34:01.337][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-09 00:34:01.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-09 00:34:01.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:34:01.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:34:01.346][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:34:01.348][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:34:01.350][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:34:01.353][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:34:01.355][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:34:01.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-09 00:34:01.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:34:01.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:34:01.364][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-09 00:34:01.367][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-09 00:34:01.368][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:34:01.370][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:34:01.373][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-09 00:34:01.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-09 00:34:01.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:34:01.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:34:01.391][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-09 00:34:01.394][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-09 00:34:01.396][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:34:01.398][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:34:01.401][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-09 00:34:01.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-09 00:34:01.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:34:01.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:34:01.408][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-09 00:34:01.410][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-09 00:34:01.413][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:34:01.414][ef$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:34:01.418][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-09 00:34:01.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-09 00:34:01.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:34:01.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:34:01.426][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:34:01.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:34:01.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:34:01.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:34:01.436][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:34:01.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:34:01.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:34:01.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:34:01.445][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:34:01.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:34:01.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:34:01.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:34:01.454][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-09 00:34:01.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-09 00:34:01.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:34:01.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:34:01.463][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:34:01.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:34:01.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:34:01.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:34:01.471][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:34:01.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:34:01.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:34:01.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:34:01.480][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:34:01.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:34:01.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:34:01.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:34:01.504][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:34:01.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:34:01.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:34:01.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:34:01.512][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:34:01.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:34:01.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:34:01.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-09 00:34:01.520][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-09 00:34:01.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-09 00:34:01.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-09 00:34:01.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-09 00:34:01.531][self$createEntryFromContent] Accession numbers: 2571.
biodb.INFO [2025-09-09 00:34:01.562][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-09-09 00:34:01.564][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2025-09-09 00:34:01.567][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-09-09 00:34:01.568][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-09-09 00:34:01.569][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-09 00:34:01.570][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-09 00:34:01.571][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-09 00:34:01.572][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-09 00:34:01.574][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-09-09 00:34:01.575][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 358 ]
> 
> proc.time()
   user  system elapsed 
 31.730   1.686  41.357

Example timings

biodbChebi.Rcheck/biodbChebi-Ex.timings

name	user	system	elapsed
ChebiConn	4.425	1.228	6.766
ChebiEntry	0.596	0.019	0.617